If your car is getting the flexpipe chopped off and then rewelded with double braided pipe then i think it would need to be taken out.
IMO my 2c (not worth much) but i think they would have measured the distance to the topspeed headers from where they cut it off to the flange>cat and they make sure your double braided flexpipe will be the same length to suit.
Reweld whilst it is off the car and then reinstall it back on.
They usually tack weld it on the car, then take it off to have it fully welded on. But since i have the headers off the car and plan to drop it off on a weekday, I will need my car to be with me. Oh well.... I'll bring up the issue of the leaking flange too.
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