| Scientific Name | Common Name | Notes |
| Order Acipenseriformes | | |
| Acipenser oxyrinchus oxyrinchus | Atlantic Sturgeon | formerly occasional, now very rare |
| Order Albuliformes | | |
| Albula vulpes | Bonefish | rare; found once in 1871 |
| Order Anguilliformes | | |
| Anguilla rostrata | American Eel | common |
| Conger oceanicus | Conger Eel | moderately common seasonally |
| Muraena retifera | Reticulate Moray Eel | accidental; 1 off Chappaquiddick 1899; the only New England record (Smith 1899) |
| Ophichthus cruentifer | Margined Snake Eel | rare |
| Order Atheriniformes | | |
| Menidia beryllina | Inland Silverside | common |
| Menidia menidia | Atlantic Silverside | common |
| Order Aulopiformes | | |
| Synodus foetens | Inshore Lizardfish | uncommon |
| Order Batrachoidiformes | | |
| Opsanus tau | Oyster Toadfish | common |
| Order Beloniformes | | |
| Cheilopogon melanurus | Atlantic Flying Fish | rare; found in 1899 and 1908 |
| Exocoetus volitans | Tropical Two-wing Flying Fish | scarce |
| Hirundichthys rondeletii | Black Wing Flying Fish | rare; found in 1900 |
| Hyporhampus roberti | Slender Halfbeak | uncommon |
| Scomberesox saurus | North Atlantic Saury | rare; found in 1905 |
| Tylosurus acus | Agujon Needlefish | rare |
| Strongylura marina | Silver Gar or Atlantic Needlefish | moderately common |
| Order Beryciformes | | |
| Sargocentron coruscum | Reef Squirrelfish | very rare; found in 1899 and 1900 |
| Order Clupeiformes | | |
| Alosa aestivalis | Blueback Herring | common |
| Alosa mediocris | Hickory Shad | common |
| Alosa pseudoharengus | Alewife | formerly abundant, now moderately common |
| Alosa sapidissima | American Shad | formerly common, now uncommon |
| Anchoa hepsetus | Broad-striped Anchovy | rare; taken in 1906 |
| Anchoa mitchelli | Bay Anchovy | common |
| Brevoortia tyrannus | Atlantic Menhaden | common |
| Clupea harengus | Atlantic Herring | seasonally common |
| Sardinella aurita | Spanish Sardine | rare; taken in 1892,1900, and 1908 |
| Dorosoma cepedianum | Atlantic Gizzard Shad | common some years |
| Engraulis encrasicolus | European Anchovy | variably common; an Eastern Atlantic species |
| Etrumeus teres | Atlantic Round Herring | rare; taken in 1905 and 1908 |
| Opisthonema oglinum | Atlantic Thread Herring | very rare; taken 1885, 1901, and 1902 |
| Order Cyprinodontiformes | | |
| Fundulus diaphanous | Banded Killifish | common |
| Fundulus heteroclitus | Mummichog | common |
| Fundulus majalis | Striped Killifish | common |
| Cyprinodon variegatus | Sheepshead Minnow | common |
| Lucania parva | Rainwater Killifish | common |
| Order Elopiformes | | |
| Elops saurus | Ladyfish | moderately common |
| Megalops atlanticus | Tarpon | uncommon to rare |
| Order Gadiformes | | |
| Brosme brosme | Cusk | very rare |
| Gadus morhua | Atlantic Cod | formerly common now rare |
| Gaidropsarus argentatus | Arctic Rockling | rare |
| Melanogrammus aeglefinus | Haddock | formerly uncommon now rare |
| Merluccius bilinearis | Silver Hake | variably uncommon to common; formerly common |
| Microgadus tomcod | Atlantic Tomcod | common |
| Nezumia bairdii | Marlin-spike Grenadier | very rare; found once in, 1882 |
| Pollachius virens | Pollock | formerly common; now uncommon to rare |
| Urophycis chuss | Red Hake | common but less so than formerly |
| Urophycis regia | Spotted Hake | rare |
| Urophycis tenuis | White Hake | common |
| Order Gasterosteiformes | | |
| Apeltes quadracus | Fourspine Stickleback | common |
| Gasterosteus aculeatus | Threespine Stickleback | common |
| Gasterosteus wheatlandi | Blackspotted Stickleback | uncommon |
| Pungitius pungitius | North American Ninespine Stickleback | common |
| Order Lophiiformes | | |
| Histrio histrio | Sargassum Fish | irregular; only found with floating Sargassum weed |
| Lophius americanus | Goosefish | common |
| Order Ophidiiformes | | |
| Ophidion marginatum | Striped Cusk-eel | rare; one found in 2001 |
| Order Osmeriformes | | |
| Osmerus mordax | Rainbow Smelt | formerly common now rare |
| Order Perciformes | | |
| Acanthurus bahianus | Ocean Surgeonfish | rare |
| Acantuhurus coeruleus | Blue Tang Surgeonfish | rare |
| Acanthurus chirurgus | Doctorfish | uncommon |
| Alectis ciliaris | African Pompano | very rare; one found in 1999 |
| Alectis crinitus | Threadfin | rare |
| Amodytes americanus | Sand Launce | abundant to common |
| Anarhichas lupus | Atlantic Wolffish | rare |
| Apogon maculatus | Flamefish | rare; found in 1899 |
| Apogon pesudomaculatus | Twospot Cardinalfish | one record, 2023 from Lambert's Cove (iNaturalist) |
| Archosargus probatocephalus | Sheepshead | uncommon |
| Auxis rochei | Bullet Tuna | uncommon |
| Auxis thazard | Frigate Mackerel | rare; one found in 1885 |
| Brama brama | Atlantic Pomfret | rare; found near Noman’s Land in 1904 |
| Caranx bartholomaei | Yellow Jack | rare; found in 1908 |
| Caranx crysos | Blue Runner | uncommon |
| Caranx hippos | Cravalle Jack | uncommon |
| Caranx sexfasciatus | Big-eye Trevally | uncommon to rare |
| Centropristis striata | Black Sea Bass | common |
| Pomacanthus arcuatus | Gray Angelfish | very rare; one record |
| Chaetodipterus faber | Atlantic Spadefish | very rare; one found in 1906 |
| Chaetodon capistratus | Foureye Butterflyfish | variably rare to absent |
| Chaetodon ocellatus | Spotfin Butterflyfish | uncommon |
| Coryphaena hippurus | Dolphin | uncommon |
| Cryptacanthodes maculatus | Wrymouth | rare; one found in 1900 |
| Cynoscion regalis | Weakfish | common |
| Decapturus macarellus | Mackerel Scad | seasonally common |
| Decapturus punctatus | Round Scad | rare; found in 1908 |
| Epinephelus adscensionis | Rock Hind | rare; one found in 1899 |
| Epinephelus morio | Red Grouper | rare; found in 1899 and 1900 |
| Epinephelus nigritus | Warsaw Grouper | rare; one found in 1899 |
| Epinephelus niveatus | Snowy Grouper | variably common to uncommon |
| Euthynnus alletteratus | Little Tunny | common |
| Gobiosoma bosci | Naked Goby | rare; found in 1906 |
| Gobiosoma ginsburgi | Seaboard Goby | uncommon |
| Hyperoglyphe perciformis | Barrelfish | common |
| Katsuwonus pelamis | Skipjack Tuna | very rare; found once in 1878 |
| Kyphosus spectator | Bermuda Sea Chub | rare; found in 1906 |
| Lagodon rhomboides | Pinfish | rare |
| Leistomus xanthurus | Spot | uncommon |
| Lobotes surinamensis | Atlantic Tripletail | very rare; found in 1873, 1875, 1886, and 1890 |
| Lopholatilus chamaeleonticeps | Tilefish | uncommon to rare off Noman’s Land |
| Lutjanus analis | Mutton Snapper | rare; found 1899 and 1900 |
| Lutjanus apodus | Schoolmaster Snapper | rare; found 1900 and 1901 |
| Lutjanus campechanus | Northern Red Snapper | rare; found 1890 and 1900 |
| Lutjanus griseus | Gray Snapper | rare; found 1897, 1900, and 1906 |
| Lycodes lavalaei | Arctic Ocean Pout | very rare; only known record south of Maine |
| Zoarces americanus | Ocean Pout | uncommon |
| Makaira nigricans | Blue Marlin | uncommon |
| Menticirrhus saxatilis | Northern Kingfish | variably uncommon to common |
| Morone americana | White Perch | common |
| Morone saxatilis | Striped Bass | common |
| Mugil cephalus | Striped Mullet | common seasonally |
| Mugil curema | White Mullet | common seasonally |
| Mullus auratus | Red Goatfish | uncommon |
| Mycteroperca bonaci | Black Grouper | rare; found in 1899 |
| Mycteroperca interstitialis | Yellowmouth Grouper | rare; found in 1899 and 1900 |
| Nomeus gronovii | Man-o-war Fish | rare; found in 1889 and 1894 |
| Ocyurus chrysurus | Yellowtail Snapper | very rare; found in 1900 |
| Oligoplites saurus | Leatherjack | very rare; found in 1874 and 1875 |
| Orthopristis chrysoptera | Pigfish | very rare; found in 1908 |
| Paracanthurus hepatus | Palette Surgeonfish | uncommon |
| Peprilus paru | Harvest Fish | rare |
| Peprilus triacanthus | Butterfish | common |
| Pholis gunnellus | Rock Gunnel | common |
| Polydactylus octonemus | Eight-threaded Threadfin | very rare; taken in 1908 |
| Pomatomus saltatrix | Bluefish | common |
| Priacanthus arenatus | Atlantic Bigeye | rare |
| Pristigenys alta | Short Bigeye | rare |
| Rachycentron canadum | Cobia | rare |
| Remora brachyptera | Spearfish Remora | uncommon to rare |
| Sarda sarda | Atlantic Bonito | variably common |
| Scarus iseri | Striped Parrotfish | rare; 2 found in 1900 |
| Scomber colias | Atlantic Chub Mackerel | uncommon |
| Scomber scombrus | Atlantic Mackerel | common |
| Scomberomorus cavalla | King Mackerel | uncommon to rare |
| Scomberomorus maculatus | Spanish Mackerel | common |
| Selar crumenophthalmus | Bigeye Scad | common seasonally |
| Selene dorsalis | African Moonfish | rare [possibly conspecific with S. setipinnis] |
| Selene setipinnis | Atlantic Moonfish | rare |
| Selene vomer | Lookdown | rare |
| Seriola lalandi | Yellowtail Amberjack | uncommon |
| Seriola zonata | Banded Rudderfish | uncommon |
| Sphyraena borealis | Northern Sennet | uncommon |
| Stegastes leucostictus | Beaugregory | rare; one found in 1899 |
| Stenotomus chrysops | Scup | common |
| Tautoga onitis | Tautog | common |
| Tautogolabrus adspersus | Cunner | common |
| Tetragonurus cuvieri | Smalleye Squaretail | rare; one found in 1899 |
| Tetrapturus albidus | White Marlin | uncommon to rare |
| Thunnus albacares | Yellowfin Tuna | common offshore |
| Thunnus alalonga | Albacore Tuna | common offshore |
| Thunnus obesus | Bigeye Tuna | common offshore |
| Thunnus thynnus | Bluefin Tuna | common offshore |
| Trachinotus carolinus | Florida Pompano | uncommon |
| Trachinotus falcatus | Permit | uncommon |
| Trichiurus lepturus | Largehead Hairtail | uncommon |
| Ulvaria subbifurcata | Radiated Shanny | rare |
| Xiphias gladius | Swordfish | formerly moderately common; decreasing to rare |
| Order Pleuronectiformes | | |
| Bothus ocellatus | Eyed Flounder | rare; found in 1906 |
| Gymnachirus nudus | Naked Sole | rare; one found in 1906 |
| Hippoglossoides platessoides | American Plaice | uncommon |
| Hippoglossus hippoglossus | Atlantic Halibut | formerly common now rare |
| Lamanda ferruginea | Yellowtail Flounder | common |
| Scophthalmus aquosus | Windowpane Flounder | common |
| Paralichthys dentatus | Summer Flounder | common though less so than formerly |
| Paralichthys oblongus | Fourspot Flounder | common |
| Etropus microstomus | Smallmouth Flounder | found at Inkwell Beach in 2018 and 2-19 using eDNA technique discussed in introduction |
| Pseudopleuronectes americanus | Winter Flounder | common |
| Trinectes maculatus | Hogchoker | uncommon to rare |
| Order Salmoniformes | | |
| Salmo salar | Atlantic Salmon | rare |
| Order Scorpaeniformes | | |
| Cyclopterus lumpus | Lumpfish | uncommon |
| Hemitripterus americanus | Sea Raven | uncommon |
| Liparis atlanticus | Atlantic Sea Snail | rare |
| Liparis liparis | Striped Sea Snail | uncommon |
| Myoxocephalus anaeus | Grubby Sculpin | common |
| Myoxocephalus scorpius | Shorthorn Sculpin | |
| Myoxocephalus octodecimspinosus | Longhorn Sculpin | common |
| Prionotus carolinus | Northern Sea Robin | common |
| Prionotus evolans | Striped Sea Robin | common |
| Scorpaena grandicornis | Plumed Scorpionfish | very rare; one found in 1899 |
| Order Siluriformes | | |
| Bagre marinus | Gafftopsail Sea Catfish | rare; taken in 1871,1886, and 1906 |
| Order Syngnathiformes | | |
| Fistularia tabacaria | Trumpetfish | rare; taken in 1906 |
| Hippocampus erectus | Lined Seahorse | uncommon |
| Syngnathus fuscus | Pipefish | uncommon |
| Order Tetraodontiformes | | |
| Acanthostracion quadricornis | Scrawled Cowfish | rare |
| Aluterus monoceros | Unicorn Leatherjacket | rare |
| Aluterus schoepfi | Orange Filefish | rare |
| Balistes capriscus | Gray Triggerfish | uncommon but regular |
| Balistes vetula | Queen Triggerfish | uncommon to rare |
| Canthidermis sufflamen | Ocean Triggerfish | rare; one found in 1897 |
| Chilomycterus antillarum | Web Burrfish | rare; found in 1899 and 1911 |
| Cyclichthys schoepfi | Striped Burrfish | irregular |
| Lactophrys trigonus | Buffalo Trunkfish | uncommon |
| Lactophrys triqueter | Smooth Trunkfish | rare; found in 1899 |
| Lagocephalus laevigatus | Smooth Puffer | uncommon |
| Mola mola | Ocean Sunfish | uncommon to rare |
| Sphoeroides maculatus | Northern Puffer | common |
| Sphoeroides spengleri | Bandtail Southern Puffer | very rare; found in 1899 and 1900 |
| Stephanolepis hispidus | Planehead Filefish | very rare; found in 1899 |