1. Non-ebp pedestal eliminates the exhaust backpressure valve. There is no real benefit except you get a little more room, do not have to worry about the ebpv leaking/sticking.
You can also get the exhaust housing that eliminates the butterfly for the ebpv which gives a touch more flow.
I will be doing this to eliminate any future issues. There is also a ebpv delete mod if you want to save money.
2. Bellowed up- pipes are highly recommended. Up-pipes are a spot for exhaust leaks. Bellowed up-pipes allow for flex and have a better sealing design. Must have upgrade
3. Some delete the factory fuel bowl. Some of these kits have 2 filters, one for better fuel filtering and the other I believe is a water separator. These kits also regulate fuel and get rid of air in the fuel system making a better life for the injectors/motor.
More experienced guys can give you better details