JST connector for sure, regarding the LiPo power (and a pin header for powering with an external LiPo for embedded purposes).
There was a question regarding GPS in this thread…
Does the cellular module itself have aGPS capablility? (and if so, will an extra uFL connector be exposed for a GPS antenna). I would find it very valuable to have this functionality incorporated if the cellular module has it natively – I imagine a large number of remote applications will want GPS data (or aGPS data). Having it query-able through your platform would be ideal; or even something as basic as accessing it with AT commands…