I should also add that there doesn't seem to be a way to speed up move animations in this game (unlike Gates), so finding ways to link as few moves as possible while doing enough damage is ideal.

Teaching a move over a linked move will delink the whole set. Say you start with Meowth and link Scratch + Bite + Foul Play. At level 14, if you wanted to teach Fury Swipes over Scratch, that would delink the entire moveset. Luckily in the fugitive arc (Lapis Cave - Mt. Freeze) and onwards Link Boxes spawn fairly frequently so carrying 1 to relink moves as necessary is recommended.

I'm assuming you want to run any% no WM (the only category for now).

• Options: Change speed to fast, camera off; auto mode focus to finding the stairs, auto mode movement to fast
• Linking moves is free at Gulpin; losing PP will NOT delink moves. Based on the moveset of the starters that you chose, link moves accordingly; learning a new move over a move part of link will delink the move.
• There are a lot of mission days that can be skipped by Giving Up in a dungeon. Make sure to store your items and money first! On one of the mission days after Mt. Steel, you can access bank/storage directly from the dungeon exit instead of going to town (and avoiding dialogue)
• Try and find Blast Seeds for early bosses. Having Linked Moves is essential.
• Absol carries after Mt. Freeze; try and find a Brutal Swing TM in shop (not required).
• Rescue Team Base upgrade requires 3 Chestnuts instead of 2; Uproar Forest is only 3F instead.

I think some people in the community will gradually put together a written guide; here are my few cents as of this very early stage.