There are other tools that can do this as a post processing step, I think in the past I used Pentalogix Viewmate, but IIRC the free version doesn't support exporting back to gerber, so it's only useful if you're making the stencil yourself.
FWIW, you can probably set all of the paste mask sizes in your library to whatever suits you, it's a bit of a pain, but once you know what works for a given package in your assembly process it shouldn't be something you have to mess with again. If you choose to later on send the design to a CM, I would expect them to tweak the stencil to suit their workflow anyway and wouldn't stress about whether or not your paste mask works for anyone but you.