(disclamer) "I have no idea if cutting out the foot rest in you boat will cause it to crack in 1/2 and sink to the bottom of the lake"
With that said I say cut that hump out! Most likely That foot rest is fiberglass with foam. Cutting it out will expose the raw floor and the foam. Your gonna have to seal ithat hole up. If your handy with fiberglass you can re-glass the floor yourself its not a big job just dusty. Mabey someone with direct first hand exp can chime in about the removal of foot rest.
Here are some Pick's of the foot rest I chopped out of Jason's MasterCraft.