Tip: Make sure that ALL exit-enabled pipes, doors, etc. have a screen exit defined, or they'll take you to Level 0, the "endless" bonus game. Unless Start+Select is enabled, the only way out of it is to reset the game.
1. Goal tapes don't work because you loaded your old rom in a new version of lunar magic.
2. I don't know what PIXL is can you explain what that is? Then I could help you.
3. Your custom palette might have overlapped with the status bar palette.
4. I recommend having a big folder with all of your smw stuff. Inside that big folder you should have a other other folder's for your custom sprites, custom block's,custom music, tool's, custom graphic's. and your rom.