So my justification for giving a bit more tol to the threaded hole when possible...
Creating the threaded hole is typically a multi step process. First you have to drill a tap hole - which simplistically I'd assume has similar process capability as the mating clearance hole from a tolerance point of view.
You then have to tap the hole, while the tap will follow the hole it may wonder a little bit - or so I've come to understand.
Finally when you come to inspect the hole you can't generally take advantage of the MMC like you can on the typical clearance hole.
MfgEngGear makes a good point about the projected height of the fasteners that go in the holes, however I'd hope the OP has taken care of this either by over sizing the clearance hole accordingly (ASME Y14.5M-1994 annex B shows how to do this), using a projected tolerance, or maybe just accepting the risk and using up some of the generally over conservative 'worst case' tolerance budget.
Obviously a lot will depend on what your tolerance is. The OP tolerances aren't that tight - hitting dia .010 pos with a threaded hole shouldn't be much of a cost driver. Also I don't know what the OP's tolerance on the clearance hole diameter. However, without knowing more I might suggest a rule of thumb 60%-40% split in favor of the threaded hole, so maybe .018 for the thread and the rest on the clearance.
Or, if your machine shop quotes the all to familiar "+-.005 tolerance for holes tighter will cost you" then throw .014 on the clearance hole and the rest on the threaded hole just to keep them happy;-).
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