I'd think this would be a good option as it flashes your factory map back every time you swap maps over.
Quite aside from warranty work if you even need diagnostics run on the car it's better to have a 100% factory map to work from.
I think Bluefin warrant the drivetrain for 12 months or so if you have factory warranty too but I'd hate to be caught in the middle of VW waving the TD1 and Superchips underwriters saying it's not their software at fault...