> 1) I'm 1 nanoxite stone and 3 perolitium shards short (if I can count the key, then I only need 2)
> I've been all over, through, down the mines (sandstone & limestone).

Okay, you can get some pero shards from the room next to the rubbish pile, which you need to blow open. You'll get the explosives by trading away some Pero shards.

Nano stones are only to be found in the mines.

> 2) The only place I can't get to is behind the barrier once you go past Cortez - is that relevant?

you need to open all the barriers. So yes, it's relevant.

> 3) I can't get the silver key, she keeps catching me, is this just one of those sequence aspects of the game, as in keep trying one option or another?
> Yes/No

You need to do things in a certain order. Verna always moves the same way, so keep that in mind. and remember, patience is a virtue.

> 3A) If no, then some guidance would help

See above.
>
> 4) Do I need to get the shards/ stones/ key before I try and blow up the docking bay?
> Yes/No

yes. you need what you get from all the shards to survive distracting everyone.

>
> 5) Do I need to get in the brats room at all? He gives me the passcard to 1 room but threatens to tell on me if I try to go for his room and there's no option to tranquiize him! :o(

No, you don't. if you've given him the soda, you're done with him.

>
> 6) Out of curiosity, where's Dr Gingram (what a mixed up name he has ;oP )

What do you mean a mixed up name? I don'tget it...

And you'll find out where he is... at least, I think you will...

Rift "Anti gravity makes me vom... urgh... bleeegghhhh!" Traveler