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You can cut the silicon away from the CT1, it's just a stronger product than the more decorative mastic. Your tiler wouldn't appreciate instructions on applying silicone I'm sure!
I never used to use masking tape when applying silicone but these days I always mask and use a special solution for smoothing the silicon. Silicon online have loads of great products for silicon application, each to their own though, it's a job I hate and I know a lot of trades have a specialist come in and do all the sealing once they are finished as the standards householders are looking for have gone beyond the kind of nightmares that get passed off.
Mapei has been one of the better ones in my experience but it will still get mouldy. These days I use something like CT1 to seal the bath/shower to the walls and then a 'decorative' sealant on top. Makes it easier to cut out every few years.
If you have to cut silicon out there is a great blade available for the Fein multimaster type tools, makes the job much easier and probably worth having now that type of tool has come down in price from Bosch etc. Just be careful with it on plastic shower trays.