I'd say the best practice is to let your players figure that out for themselves.
For rigging, a common thing is the rigger sits in the soccer mom van in VR and jumps into the drones accompanying the the team. That way when the team is ready to make their escape to the getaway vehicle, the rigger's already there...
likewise, many hackers might reason they don't need to worry about sneaking and athletics and combat skills if they spend their time in VR on matrix overwatch. it's hard to say that's a wrong way to play!
As you intuited, Noise works as a mechanic to encourage matrix users to physically accompany the rest of the team. In the case of hackers, there are additional tricks to "encourage" them to physically come along... like hardlined security devices (no wireless signal to hack...) and nested host architectures (you can make a shortcut to the end of the VR maze by establishing a direct connection to the right physical device...)
Note that hacking and drone controlling CAN be done in AR...no VR is absolutely necessary! (ok, VR *is* absolutely necessary to jump in, but you CAN control a drone without jumping in! That's why you paid for a RCC...)