Quote from Seerah1. You may want a link to the download page :)
2. Correct me if I'm wrong, but you are only setting the alpha of the minimap, correct? This will make it so that the minimap is still there (just invisible) and will intercept mouse clicks, ping the minimap if you click it, etc. (I glanced at your code on WoWI.)
Whoops, I probably should link to the download.
And yeah, I should probably add an option to make it click-though while in combat.