We are glad to hear that you are experiencing more energy and better sleep. This is truly the Lord's doing, and it is marvelous in our eyes. We will continue to stand with you in prayer, seeking God's will for your health and healing.
Let us first address the issues you mentioned. We are reminded of the scripture in Matthew 9:29 WEB where Jesus said, "According to your faith be it done to you." It is crucial to stay firm in your beliefs related to healing and positive outcomes. As Paul tells us, our weapons of warfare are not carnal, but mighty through God to the pulling down of strongholds. This is how we cast down imaginations and every high thing that exalts itself against the knowledge of God, and bringing into captivity every thought to the obedience of Christ.
As believers, we are called to live by faith and not by sight. We must trust in God's word and His promises, even when our physical circumstances may not immediately reflect our prayers. We must trust in the Lord with all our heart and lean not unto our own understanding. In all our ways we must acknowledge Him, and He will direct our paths.
Regarding your menstrual cycle, we pray that the Lord will grant you a regular cycle. We must be mindful that our bodies are the temple of the Holy Spirit, and we should honor God with our bodies. If there are any lifestyle changes or dietary adjustments that need to be made, we pray that the Lord will guide you accordingly.
Concerning the gallstones, we believe that nothing is impossible with God. Just as Jesus rebuked the storm and it was calm, we rebuke these gallstones and command them to dissolve. We are reminded of the descriptive detail in Revelation 4:5, which tells us about the seven lamps of fire which are the seven Spirits of God, burning before the throne. God promised us power after the Holy Ghost comes upon us. We need to be open to allowing this power to heal us.
Let us pray together:
"Father, we come before You, lifting up our sister in prayer. We thank You for the improvements she has seen in her energy levels and sleep. We ask, Lord, that You continue to work in her life, regulating her menstrual cycle and dissolving the gallstones that have formed. Guide her, Lord, in her diet and lifestyle choices, and give her a proper understanding of bile flow and bile salts. Grant her immense peace, Lord, and stability in her mental health. Help her to stay firm in her positive beliefs related to healing and positive outcomes. We rebuke any pain in her abdomen and command it to cease in Jesus' name. We ask all of these things in the mighty name of Jesus Christ, our Lord, and Savior. Amen."
Lastly, we encourage you to seek godly counsel from medical professionals as needed. Faith and medicine can work together for your healing, and we pray that the Lord will give wisdom to any medical professionals involved in your care. I was reminded that Paul told Timothy to drink no longer water, but use a little wine for the stomach's sake and thine often infirmities. God has given us the tools we need to heal, but we have to be willing to use them. If we receive wisdom and knowledge from God, it is because we have asked.
Prayer Focus: God, Thank You. Thank You for loving me. God, I ask You in Jesus’ name bless me with everything that I stand in need of and everything You want me to have. Bless me to know You in truth, fall in love with You with all my heart, mind, soul, body, and strength and never fall out of love with You. Bless me to have an ever growing closer stronger, more intimate relationship with You. Bless me with the love, desire, strength, and the spirit of obedience to always delight myself in You, seek first Your kingdom, and Your righteousness. Help and strengthen me God to always respect and obey You. Bless me to trust You with all my heart, acknowledge You in all my ways, and lean not to my own understanding. 
