complementing about Spikeman was saying...
there's a way to use exported palettes from Visualboy Advance, and import it to Tile Layer Pro, or Tile Molester.
in VBA, you can export palette from two formats: .PAL and .ACT
if you export to .PAL, you can use PaletteEdGBA (get it here:
http://www.romhacking.net/utils/417/) and convert this .PAL to palette formats perfectly accepted in Tile Layer Pro. Still isn't compatible for Tile Molester, though...
if you export to .ACT, there's a way to make TM read it by editting tmspec.xml, as Spikeman said above. you can find a tutorial about it here:
http://www.playeradvance.org/forum/showthread.php?t=3872.
the only problem is that it's in french. it's made by YoBoy, a french romhacker.