The nice thing about pex is that you can start from anywhere and replace pipes using the pex fittings and valves. A 3/4 pex will snap onto a 3/4 copper or 3/4 pex.
It is more expensive, but a real pleasure to use. I have a single pex shutoff valve on every line in my house, all in one room. It's hard to beat.
The idea of Flux getting into, say, the water heater has always concerned me. Not anymore.