I think the answer is yes, the Army can seek to separate you.
The first step they have to decide is whether the offense for which convicted could warrant a BCD if it was prosecuted at court-martial. To that the answer is yes. If you were prosecuted for indecent liberties with a minor and convicted at court-martial the potential sentence could include a BCD. The interesting issue is that with the plea bargain an assault and battery is what's left. An assault and battery can result in a potential maximum of a BCD and 6 months confinement at court-martial, more if it's an indecent assault or acts.
If they do decide to separate it will depend on what type of characterization they seek.
If they go for a general discharge
, then your rights are limited to submitting a written rebuttal for consideration.
If they go for an OTH, then you have, and I would recommend you elect, a right to a hearing. At that hearing you can have legal counsel, call witnesses, present evidence, and make a statement. All of that is with a view to persuading the board to recommend retention or a better discharge. You should elect a board. If you don't you'll get the OTH AND that will prejudice you later if you try to upgrade the discharge.
Hope that answers the questions.