Quote originally posted by YouListeningROMs:
Any problem with the coloration when it appears in the Advanced Map screen is due to you not adhering to the colors given in the palette, which means you're gonna have a bad time.
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In addition to palette problems, it looks as if there are animated water/flower tiles in his map, which occur when you insert any tile over a preexisting animated tile.
One frame of the animation may be your new tile, but the rest will be whatever you inserted over top of.
If i'm not mistake this is either fixed by disabling the animation in a Hex editor or just flat out going back and fixing the animated tile and insert your new tile over top of one that's not animated.