I've got the 5DmkIV which has a pretty similar AF system.
Generally I use case 1, or case 5 for small birds. Manual exposure mode, auto ISO, shutter speed 1000 or greater, f8, CWA metering or partial (very occasionally spot). For focus points I tend to have them all activated for BIF, but occasionally I'll have them all activated with a single initial focal point, sometimes I use 9 point, very occasionally single point. EC as appropriate, max ISO 12,800.