I would like to know how to train all of your stats for free as well.

hey, what is that construction room for, i kno thats where you fight the virus but it dont make a diferent, and why cant we aksess the control central after getting the employ card, and how menny tropheys are there in the game

As to why you cannot access the control room after getting the employee card, only the developer of the game know the reason.

This is not correct:
Spoiler!
This is for story reasons.
Think back to when you finished business at the church. You were privy to a conversation between Pierre and the ship's director, in which Pierre comments on how all of the equipment is at the top of the craft, that heat rises, and that a fire aboard would cause the ship to go down much faster with the machinery being at the top.
Now think forward to when the virus hits. One of the ship's staff tells Director that the virus is causing the temperature to rise uncontrollably.
Therein lies your answer. The ship is self destructing from the top down, and the control floor is the uppermost point. Therefore, the top floor becomes inaccessible at the point when the evacuation begins. It's probably an inferno up there by this point.

Plot related spoilers here.
I don't think it has anything to do with the door -- as it is not a door you use to access that area but rather a staircase -- but rather it has more to do with the overall safety of entering that area.
Would you climb a set of stairs leading to floor filled with smoke and flames, and probably falling debris and collapsing structures?
As for Ross's mum, you're right in that I don't think she is mentioned again after Director comes to Ross's cabin to recruit him in finding Pierre and stopping the attack on the craft.
Sometimes stories do leave certain plot lines unresolved for the audience to speculate. They evidently got separated. Did she get off the ship safely or did she die?
I would say that is left up to us to imagine.
The ship is not intended for dragon halflings specifically. In fact, if you remember, we are told that Starwalkers is an interplanetary cruise line for humans. The company secretly rescues the halflings from earth and brings them to safety on Xopolous. The humans aren't supposed to know that the halflings are aboard, however the information got into the wrong hands somehow, hence the terrorist attack faced by the ship and its passengers.

right the ship is not intended for hallings only but it is currently bound to plannet zopulus which according to the game it self is inaccessible to human. Or maybe, let's say that the tragedy did not happen and that the ship rich the plannet safely, those other passengers will just stay inside the ship and not suppose to go outside while the hallings are disembarking? is that it. O well. heh right the fate of the mother of ross is left to the imagination of the players so my imagination as to what happen to his mother is like this, she was rape by other passenger who thought to him self, if i am going to die, i might aswell enjoy my self as much as possible for the remaining few minutes of my life. And when ross found out what happen to his mother, he just shrug his shoulder and said o well, its ok, at list, she tasted the heavens menue before she died. So this bring me to the conclusion that ross is a heartless person or halling. afterall, they are only partly human. rofl.

About storylines:

As Jade said above, best not to try too hard to explain or decipher the story. This developer makes decent games, but his writing leaves something to be  desired if one is a critic of such things. I personally love a good story, so the storylines of this developer’s games don’t really do more than give me something to follow. Perhaps if someone could improve on the storylines of games like Manamon it would add to their appeal. The developer doesn’t seem to be open to suggestions, though, so I wouldn’t bet my iPad on that ever happening.

I am not trajectory but as to the questions of whether this protector can join your group at some point, i think that is not true. I even tried not rescuing Stella and go to the paladin ruins immidietly after i defeated Piere hoping that i can return the essense of resurrection to the protector instead of fighting her but that does not work alsow. However, that training of your stats for free is true though so i really dont know if there is a way alsow for this protector to join your group at some point. Maybe, there is alsow a trick for that but I really dont know.
Heh I am thinking of doing a full walk through my self about this game noting the location of all those galactic dust and and galactic stone in the post game and all of those treasures. How to get the two ending and so on. How to get the ending where Ross died and how to get the ending where Ross and shona get married i mean. HMM.

and how menny trophees are there in the game and what happens if you get all of them, and what is the construction area for in the reck flore 3

Spoilers:
As for recruiting the protector, I can only say this much right now and that is that I'm 99 percent sure this is a negative.
What happens if you defeat her in the holding cell, don't use the resurrection cream and instead go to her in the postgame ruins, cream still in your possession? I have to be honest, I've never tried that but I'm not aware of anything with respect to that.
@Jade:
The specific story questions that were asked by @ultimateblade, with the exception of Ross's mother, are in fact either explained or easily explainable.
The question about the ship and why the halflings are aboard is in fact directly addressed.
The question about the control room and why it can't be accessed later in the crash is addressed indirectly.
Ross's mother is not addressed; it could be an oversight or it could simply be something intentionally left to imagination. I can think of no fiction to which I have been exposed, wherein I have been left with no unanswered questions, as much as I may hate how much time they leave me fixating on them.
I'm sure I could write an essay on Roald Dahl's book the Witches, and all the unanswered questions and speculations I have with respect to it, despite how much I love the story.
As for the supposed infinite training glitch, I definitely have to try and verify that when I have the chance. I'm a speed run junky, and I wish there was more interest in speed runs among the audio games scene (though I guess there aren't enough games out there that would make a good speed run).
If it wasn't for the lower chamber mechanic, Paladin would actually be an ideal speed run game. If you know enough about the game, it can be finished in under five hours (provided you get decent key fragment placement in lower chamber 3).
If this infinite training bug works as advertised, all though a bit too late game to be overly helpful, it would certainly be good speed run tech that would bring the time down considerably since it's currently necessary to do the galactic dust quest in order to get a time anywhere close to five hours.
Being able to give Shauna an extra hundred strength points for free would allow her to easily defeat Pierre single handedly at level 50. I suspect that it would knock quite a bit of time off the run, as doing to Stella side quest will no doubt be faster than gathering all the galactic dusts and defeating the virus (which involves scaling the infinite matrix three times).

Interesting point with respect to the halfling floor. Although I've seen far greater sins committed in works of fantasy far more popular. Perhaps that's one of the ways in which the society or whatever they're called found out that they would be aboard in the first place?
Perhaps they can fly over Xopolous and then reroute one of the teleporters to send the dragon children to the exterior of the craft with parachutes on?
Just speculating.