Download Lunar IPS
Put all the files in the same folder (you may have to unzip the emulator and the ROM).
Open up Lunar IPS or MultiPatch.
Click Apply IPS Patch
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Select the Patch File (IPS file).
Select the original ROM file (GBA file) you want to patch. Make sure the patch matches the ROM (FoMT with FoMT:TLE and MFoMT with MFoMT:TLE). The ROM is now permanently patched with the new data. (You no longer need the IPS file and can delete it at this point).
Open up your Emulator. Go to File > Open, and select the ROM file (GBA file). The game should start, and you’re on your way! The default controls for VBA-M is Arrows, ZXAS, Enter, and ESC