Thanks for the feedback. I won't address every point below, but be assured we're taking all feedback on board in attempting a create a skin which works well for the majority of users.
Widgets won't carry over, as the new skin has a completely different widget system behind the scenes. It's also worth noting it's since been updated further on git, though I don't believe these changes are 'live' as yet, which will require setting up widgets again. (One of the side effects of testing, I'm afraid )
These do two different things - the first will reset everything but the menu, the second resets the menu. If the first isn't working, that is a Kodi issue.
I thought I'd fixed the disable-not-triggering-rebuild in the recent update to the Skin Shortcuts script, but I'll add it to my to-look-at list for that script.
The blue line is most likely the submenu which is hidden just off-screen. If you're seeing it, its most likely your have a little bit of overscan.