as I understand you write two issues:
1.
"makes some noise at idle with the clutch pedal up"
2.
"the 5th gear was making some kind of the sound of marbles at 1500 rpm cruising around."
1.
may be ball bearing in flywell issue?
2.
I would go in the direction of Kaaz mentioned
and I am doing all the measurements according to the instructions (needle bearing surface etc.)