I have a pair of BP9040s, pair of Atmos A90, CR 9060, a pair of SR 9080s and a Martin Logan Dymamo 1000 subwoofer with Denon 2300 for six months now. I tried with LFE and with out LFE on the BO9040s. Finally decided on sticking with the following settings and I'm really enjoying this setup for a month now.
Front and Center speakers Large, surround and Atmos small, Sub - yes, Crossover for front and center - 40htz, surround - 100htz and Atmos - 150htz, Subwoofer LFE + Main and Crossover 80htz.
BP9040
CR9060
SR9080
Atmos A90
Martin Logan Dynamo 1000
Denon - 2300
Epson - HC3100