hey,
Not easy to solve the problem.
you have 3 options,
1) savest, get a 99-00 fuelpump AND injectorrail (I have also 2001 busa and saw today that the engineblock are prepared to mount an extendend fuel pump like 99-00.
2) what you said, modify the tank and place the internal-pump into it. BUT Iīm affraid the paint IN the tank where you gonna weld gonna peel off. Also it must be perfect done so that you donīt have a fuel-leak.
3) find the another tank 01-06 and repaint it.
I know itīs sucks