OK, so since we're in a bit of a bind regarding the LP code, I wanted to just weigh in some thoughts:
The 'Object' which we can safely assume is a Thargoid thing is missing. It was on the ship prior to Dr Carvers escape on the sidewinder, but where is it now?
Was it taken on arrival in Chukchan, or somewhere in between?
The 'Object' can be 'heard' on the Infrasonic level, meaning surely it can be detected by our FSS at the low end, much like signal sources.
Also where was the Adamastor taking the object? It seemed to be heading in a particular direction before the systems failed and all hell broke loose. It then autopiloted to its home system of Chukchan.
So my guess is, the LP code shows instruction to pick up the object and then where to take it.
On the code itself, I think others are right in saying some parts are not encrypted, it seems too much coincidence those words appear. I spent a few hours running parts of the code through decryption, it did pop out a few words but I think it was mostly by fluke. 2 of those words were 'Lost' and 'Night'.
How wonderfully appropriate.