It makes perfect sense for Obi-Wan to speak fondly of the Jedi, both from a personal (he probably does have fond memories of days gone by) and pragmatic (he needs to convince Luke to become a Jedi) perspective. I wasn't nitpicking the Original trilogy here, I brought it up as an example of how narrative-wise a story can get away with presenting an institution as an uncomplicated good (which New Hope at least very much does) when that institution's role in the narrative is as a lost glory day that our hero is aspiring to.
The narrative role of an institution that is no longer an active force within the story is different than the role of one that is still alive and powerful.
I do think their treatment of Anakin shows a flaw, which is that the order when handling a member with pretty normal discipline problems (missing home, secret affair) is utterly incapable of doing anything productive. Anakin is not unwilling to seek their counsel, but Yoda and Mace are utterly unable to give any good advice beyond "simply do not"
I will say that the implied prior status quo of "The Jedi handle investigating crimes committed by Jedi internally" is also not good.