The stake president requests a Stake and District Organization Application form by calling Local Unit Support. That should have been done and submitted before the change was made (the form says where it is to be submitted). When the letter of approval was sent to your stake president, it would have included instructions for making the changes.
It sounds like you're past all those steps. If that has all been done correctly, then you just need to wait until the changes are processed by CHQ and appear in CDOL. Then those organizational changes will come down to stake MLS and then you can use the Ward Leader and Unit Change Request in MLS to report the new bishop. Similarly, the change will come down to the unit's MLS, turning it into a ward, so that the appropriate ward-oriented callings can be entered into MLS.
Questions that can benefit the larger community should be asked in a public forum, not a private message.