Burnt some Spaghetti!
Taking a look at the Dodge FSM this morning compared to your photos.
It looks like the FSM is illustrating the connector from the engine compartment side.
That includes the wire identifications.
Some of these circuits will change wire color, and the battery connection will change size because the fusible link is 16 gage.
Circuit A1 is the battery connection. Fusible link on the engine side is 16 gage Dark Blue.
But on the inside, A1 is 12 gage Red. It's in position J on the diagrams and seems to match your photo.
R6 is the power feed from the alternator. It's also a 12 gage wire, and is in position P on the diagrams.
Use those and other easy to identify wires to help key the orientation.
Post some more photos and we can try to help out.
If you didn't happen to know that A1 has a fusible link at the engine side of the connector, here's how you would figure it out.
CE 2 (J) is Connector, Engine compartment, position J.