Full list of skippable cutscenes

Intro

First cutscene
Pre-boss cutscene
Harpuia saves Zero

Commander room, part 1

Elpizo is introduced
Ciel and Cerveau talk while Zero sleeps
Talking to Ciel
Elpizo sends out the troops

Panter Flauclaws

Beginning of stage cutscene
Pre-boss cutscene

Phoenix Magnion

Beginning of stage cutscene
Pre-boss cutscene (regardless of which reactor room you fight him in)

Poler Kamrous

Beginning of stage cutscene
Pre-boss cutscene

Hyleg Ourobockle

Beginning of stage cutscene
Pre-boss cutscene

Commander room, part 2

Elpizo goes to Neo Arcadia with his squad

Neo Arcadia 1

Zero meets the Guardians (end of stage)

Commander room, part 3

Zero brings Elpizo back to the Resistance Base and then leaves

Kuwagust Anchus

Beginning of stage cutscene
Cutscene before "Protect Ciel" section
Cutscene after "Protect Ciel" section
Pre-boss cutscene

Commander room, part 4

Elpizo laments his shortcomings

Harpuia

Beginning of stage cutscene
Pre-boss cutscene
Post-boss cutscene (before score screen)

Burble Hekelot

Beginning of stage cutscene
Pre-boss cutscene
The Baby Elves bully X

Leviathan

Beginning of stage cutscene
Pre-boss cutscene
Post-boss cutscene (before score screen)

Fefnir

Beginning of stage cutscene
Pre-boss cutscene
Post-boss cutscene (before score screen)

Commander room, part 5

Elpizo reaches the depths of Neo Arcadia

Neo Arcadia 2

Post-boss cutscene

Fefnir AP

Pre-boss cutscene
Post-boss cutscene (after score screen)

Leviathan AP

Pre-boss cutscene
Post-boss cutscene (after score screen)

Harpuia AP

Pre-boss cutscene
Post-boss cutscene (after score screen)

Final stage

Pre-boss cutscenes for all refights
Pre-boss cutscene (Elpizo 1)
Pre-boss cutscene (Elpizo 2)
Ending cutscene
Credits