Was Link troubled?
Link was not troubled at all.
If he could help, he would, if not, he wouldn't.
He wasn't going to knowingly jump into a pit for a stranger's sake.
Even if he thinks morally, he's not a saint, and certainly not a fool!
So, Link left the decision to Dalton—whether to help or not according to Dalton's intention.
If Dalton still decided to help after considering it, then why not.
Link himself would not get involved anyway.
He would discuss the pros and cons with Dalton in advance and let him choose for himself.
The most Link could do was provide some indirect assistance, such as economic help.
As well as some suggestions on ways and methods to handle the matter.
As for the rest, it would depend on the Brotherhood Group's initiative.
He believed that with the calm Ezio and careful Linn there, nothing could go wrong.
Yet, he should pay more attention to the three people from the Social Phobia Group, to avoid Hawk Lucia finding a loophole to exploit.
Hmm...
