1) No not a joke. Actually quite normal. Not sure if you work in the sector or not, but it is not uncommon.Presumably that's a joke?
So it's claimed, and it's the one part of the story which makes absolutely no sense whatsoever and is never explained.
If they were "marking time" what were they (and the ship) doing in the Bay of Bengal at all? Having a guided tour?
Unfortunately for the security guards that's not relevant to their charge / offence and not a defence in any country.
Any comparable examples?
2) To me it makes perfect sense that the master of the vessel is in charge of its location and takes responsibility for its movement. Again, not sure if you have ever worked at sea or been in marsec, but the lads in charge of armed security and anti piracy do not routinely navigate the vessel. Even less so when they are on stand down (see above). The vessel had sought permission to enter to avoid a storm according to statements from the master. Whether this is accurate or not, the security team onboard (off duty) would have no power to counter this.
3) Sure, see below:
Arsenal of guns brought to Britain exposes border security failure