if you have a turbo you can do several things to keep the shavings out.
1. let the engine idle so it will blow the chips out as you go
2. coat the end of the drill bit with grease and take it a little at a time. the chips will stick to the grease, i have done this to keep metal shavings out of engines when the spark plug top half sheared off.
3. drop your cross over pipe so the shavings fall out (might be fun if its rusted fast)
those are the three easiest ways i know of to keep the metal shavings out.