Had new roof put on, but when I came home the nails had come through the soffit and split the wood and protrude. Roofer wants to clip off nail, and wood putty the wood. I don't think this is a good long term solution. Should I stand my ground and require new soffits?
That's actually pretty professional of the Roofer & should work out fine, putty really does do an amazing job. However, see if the Roofer might go for one more step & put up a face or crown-molding that may result in an overall improvement.
when I installed the roofing on my house I did the same thing and in hind sight I could have used shorter nails , but the building code in my area wants the roof nails to penetrate at least 3/4 inches into the sheathing. Anyway... my solution was to cover the roof eaves by screwing 3/8" rough sawn siding to the rafters bottom edge enclosing each bay and covering the underside of the sheathing and exposed nail points.