Board Thread:General Discussion v2.0/@comment-27345308-20151221001506/@comment-27345308-20160804175354

I managed to skip Undyne by loading the "Undyne the Undying" preset and then setting Undyne State 1 and Undyne State 2 in SAVE Data to "Killed". If the Undyne the Undying preset does not appear, you can click on "Reset" button to reset the presets to default and it should appear.

Hopefully this helps. Cheers!