Actually, that would in fact prevent Maxson from being a hypocrite yes.
But if it makes you feel any better:
Institute
* Their Day of the Jackboot style takeover of Diamond City
* Kidnapping people for Nazi Enclave experiments with FEV
* Unleashing the Super Mutants which just makes it WORSE.
* What they did to University Point was unforgivable
* Their slavery of Synths despite the fact at least some of them realize Synths are people
* Their suppression of cybernetics research and immortality
* Whatever the hell killed all those cats.
* The mass murder of Vault 111.
* Murdering all of the children of the Prydwen
The Institute is a constant horrific collection of evil deeds under both your son and his predecessors. Worse, it's all so horribly UNNECESSARY and a perversion of true science's purpose.
The Railroad
* Their shooting at Institute civilians and scientists
* Their betrayal of Patriot
* Their condemning of the Synths to extinction
* Their refusal to help other Commonwealthers despite Deacon saying it would help them from a practical standpoint (the way RL terrorists often do).
* Their murder of all the children of the Institute and lack of desire to sound the evacuation
* Their murder of all the children on the Prydwen
* Their refusal to follow up on Synths they've brainwashed.
The Minutemen
* Their constant in-fighting
* Their takeover of the Commonwealth settlements
* Members turning to Raiderdom after their breakup
* Their general incompetence
* The fact they can and will do the exact same mass murder as the other factions but, at least, Preston doesn't want to kill the BOS or Institute's people.
I also think the BOS is a very good and successful proven quality for bringing peace through power.
Feudalism works if you don't give two much of a crap about certain details.
And we're very much in the, "We're afraid of people coming to murder us for our stuff" age.