This list is very crude, and is really only for my benefit. Anything blacked out might be considered spoilery.

The ponies of Corral 27

Plasma Cascade TQ0903 [F cream/red mane-tail, Fusion and Gravity's dam]

Helium Flash TK2168 [M pale turquoise/blue mane-tail, Fusion and Gravity's sire]

Gravity Resonance TP5325 [F dark blue/light blue mane-tail]

Fusion Pulse TC4668 [F white/pink mane-tail]

Spiral Fracture CW8002[F medic, green/white mane-tail, kept braided, dam of Random Walk and Single Crystal]

Trocar Point PM8821 [M medic]

Random Walk DP2114 [F Fusion's friend, tan/black mane-tail, eldest filly of Spiral and Trocar, blue eyes]

Packet Switcher JQ0377 [M Fusion's friend, lemon yellow/?]

Metal Matrix [M same age as Fusion, dark green]

Cooper Pair SP1096 [M power systems pony, chocolate]

Doppler [F Redshift's mate]

Elliptic Curve DD2206 [F, Scalar's mate, green/?]

Shock Diamond [M foal, Redshift's colt, blue/indigo mane-tail]

Single Crystal [F dead foal, daughter of Spiral and Trocar, chestnut/'dark' mane-tail]]

Base Pair [? foal]

Phased Array [F foal broken right rear leg, pale orange/blue mane-tail]

Tangent Vector [M pale green/?, Scalar Product's colt]

GZ7011 'Lilac' [M lilac/blue-green mane-tail]

Back Draft [F corral teacher, missing right wing and has a damaged voice]

Stratus [M weather pony, witnessed the Arclight units operating]

Prismatic [M Spiral's first teleportee]

The first 'dead' ponies

Thermocline [M powder blue]

Redshift [M Shock Diamond's sire, violet/?, brown eyes, mate to Doppler]

Triple Point [F, green w. yellow dapples, (al)chemist]

Scalar Product [M orange, Tangent Vector's sire, mining engineer]

Other ponies

Animal Scanner [M crimson/white mane-tail]

Gamma Knife [M gold/orange mane-tail]

Mach Front [M security pony]

Lamellar Flow [M military, servitor on attack carrier Gorit's Vengeance]

Carbon Carbon [F military, servitor on attack carrier Gorit's Vengeance]

Slipstream [M no magic after storm injury, killed by Salrath, gold/?]

Needles [artist pony?]

Katabatic [F pregnant and being experimented on, skewbald coat]

Bastion [M Security pony, killed at the Institute, green coat]

Parapet [F Security pony, killed by Gravity, orange coat]

Mantlet [? airtank pony, not on duty then the Institute was destroyed]

Merlon KX7216 [F dappled grey, the Sector Chief's assistant/bodyguard]

Masters

Academician Vanca

Student Korn [grey and black, yellow eyes]

Councillor Indutu [pale fur, Synod core group]

Councillors Shmae, Caug, and Ullot [the rest of the Synod core group]

Logori [worked at the damaged reactor]

Maroril [wounded when the reactor blew]

Inthra [Korn's part time mate]

Strategist Faungo [M head of Military and Security, grey fur, scarred face and damaged ears]

Agent Salrath [F tall, brindled fur]

Agent Ilaniro [M partner to Salrath]

Sector Chief Orgon [M green eyes, mid brown fur]

Leader Turma [M Salrath's boss]

Agent Guliar [alternate ending Security trooper]

Arturor [M scientist working on the accelerator, Vanca's mate]

Korcari [M scientist working at the Institute]

Officer Lagorth [M police officer; held hostage by Gravity]

Manager Orch [M overweight, site safety manager for the demolished Institute]

Doctor Hemanth [M tiger-stripe cheek markings, works at a hospital local to the Institute]

Handler Werin [M Spiral Fracture's contact at the Eugenics Board]

Agent Lilla [F grey and black fur, Vanca's minder]

Captain Rthar [M Security reaction team leader]

Handler Elorm [F servitor handler]

Specialist Agon [M breaching specialist]

Pilot Namak [M security dropship pilot]

Pilot Hakon [M security airtank pilot]

Gunner Lazgo [M security airtank gunner]

Major Wethula [F in charge of blockade team]

Analyst Nalka [F chocolate fur, Eugenics Board Blessing expert]

Auditor Kosigan [M mottled dark grey, WC from Baur, 'heavy jaw']

Auditor Rthys [F bright green eyes, WC from Soro]

Gryphons

flysoldat Athils Gunnulf [M bald eagle-lion]

sersjant Geirstein Kafli [M goshawk-snow leopard]

flysoldat Adigard Alfgeir [M buzzard-lion]

flysoldat Svartr [F peregrine-black panther]

flysoldat Olvir Bergthor [M bald eagle-lion]

sersjant Ellisif Inga [F goshawk-lynx, team leader for the Institute raid]

sersjant Galmr [M ?-?, blockade team leader]

sersjant Halla [F white-bronze, roost boss at The Pit]

Hives -- partial list

Lacunae

Baur

Saro