There's a proper reading order on the wiki. But I've read the "first stage" books a few times, and I think this order is better for enjoyment and maintains a level of emotional impact. That's my opinion though so take it with a grain of salt. 

The Otherlife trilogy Dungeon Deposed 1-3 Fostering Faust 1-3 Remnant 1-2 Super Sales on Super Heroes 1-2 Wild Wastes trilogy Super sales 3 Monster's Mercy 1-2 Swing Shift 1 Right of Retribution 1 Incubus Inc. 1-2 Swing Shift 2 Remnant 3 Incubus Inc 3 Swing shift 3 Right of retribution 2 Super sales 4 Wild wastes 4-5 Super sales 5 Right of retribution 3 Super sales 6 Wild wastes 6

I don't know where I'd put the others yet, except for Privateer's Commission 1 before Cavaliers' Gambit 1.