Well, if you boost the crap out of your stock engine, you may loose the reliability of it. With a swap, you will gain some serious power out of a relativily stock engine. This means the honda every day drivability and reliability will still be there. Boosting can put tremendous strain on an engine, and can cause problems. That said, a turbo can be a completly safe and reliable thing, if it's taken care of. If you "boost the crap" out of your stock engine, you will need to do the internals, and will want to keep the eninge in a prime state of tune to ensure nothing goes wrong. Your stock internals are strong enough to handle low amounts of boost, such as 6psi(I've heard of one guy running 10psi on a d16 with stock internals, but I wouldnt recommend it.) For some, a high boost turbo would be nothing but a pain in the ass.
Personally, I'd do both. Start with the swap, then turbo it later(if you want).