When it comes to building sequence, Vans knows best: follow the instructions. Some builders have deviate with success but keep in mind that the VANs recommended sequence has been tested by many more builders than the variations so in case of problems you will get more help being main stream.
Updates of avionics will never be as disruptive as the switch from D100 to Skyview which Vans handled pretty well nevertheless (I know, I was there). When working on the Avionics shelf, the access from the firewall is easier without the engine.