I'm having a hard time with it too.
I was a devout Christian for pretty much my entire early adult life. But ever since transitioning, I just feel disillusioned with the church, because now having lived with people who they label as "sinners," I realized that there's nothing at all wrong with them, they're just doing what makes them happy, and to tell them that they need to change would seriously be unethical.
So yeah, I'm having a hard time reconciling all the times that I told myself I was a freak that needed to get over every single thing about me that made me "different," a "sinner," and be perfect, and transition where I basically had to admit that no amount of praying would ever cure my dysphoria, and that all that trying to pray it away ever did was bring me more and more misery. Plus how can I possibly view transition as a sin when it made me feel normal for the first time in my entire life, after 10 straight years of trying to pray it away and feeling like a disgusting freak who was missing something that every single other person seemed to have?
I can't anymore. But at the same time, every time I try to say something about acceptance, about how we're all sinners but it's okay, God's grace is sufficient for us, our job is to forgive, not to judge, someone else runs smack into me with other Biblical verses about how we're not supposed to even eat with so-called brothers who are immoral, and how yes, some people are just pre-programmed to sin, they're vessels prepared for destruction so that God' mercy can be shown on others, and I seriously just don't know what to think anymore.
It's basically destroyed my spiritual life. Because I don't know what to believe anymore. I can't condone the same "looking from over there as someone who has NEVER gone through this" view that reparative therapy and celibacy and perfect holiness are the answer. And yes, I am bitter that I wasted so many years telling myself that being trans was sinful, and all of the hatred that I poured out on myself because I couldn't change who I was.
Again, I don't know anymore. I used to pray all the time, but it's hard now, aside from being thankful when things go right and asking for help when thing go wrong. I can't seem to reconcile being LGBT with being Christian. And it doesn't help that now I'm willing to bet not a SINGLE member of the church I was baptized in would accept me, they'd expect me to de-transition and go back to being miserable and emotionally brain-dead to be "acceptable" to them again.

I don't know, maybe it's just me. I have a hard time having my own opinions. When I say something and it doesn't get approval from anyone, even if I personally believe it's true, I have a hard time saying it at all.