I think the key here is he's asking "stroker" so custom pistons are used and I can make the CR whatever is needed and match the reverse dome to the chamber of the 6.1 head. I used big chamber heads in Jasons case because we didn't know if he was going 6.1 or 5.7 heads when the pistons were ordered so I set his engine so we could run big chamber 6.1 heads or 0.020 milled 5.7 heads and keep about the same CR either way.
That being said all you need to do is spec the right custom piston, switch the exhaust manifolds and corresponding exhaust to work with the 6.1 ports and tune for the new engine, so EGR delete and a tune. Use 6.1 pushrods and 5.7 head gaskets.