"Decouple X from Y" vs "Decouple X with Y" vs "Decouple X and Y"

A database or CS-related stack exchange would likely be your best place to ask this for industry-specific usage, but from a technical writing perspective there are nuanced differences.

"Decouple X from Y" implies X can be freely modified, and changes to Y should be very limited in scope.

"Decouple X and Y" implies that both are open for modification to ensure decoupling.

"Decouple X with Y" is not idiomatic and I have never seen it used.

For your purposes, you may want to say "and" if the scope of changes are rhetoric or unknown.