Once drain line repair you have done all you can do it's time to call in the professionals. Experts dealing with water damage restoration are equipped with the equipment, experience and knowledge to be able to spot problem areas and address them right away. You should get in touch with them and arrange a visit as soon as possible. Let them know if the water is still present and how much you have been able to do. That will allow them to fit you into their schedule should your situation be urgent. Clearing water quickly is important so that mold and spores do not have a chance to take root and begin growing. This mold can cause respiratory and other serious health problems.
There are two, one on each side of the toilet, closet bolts which hold the toilet to the floor. If there are caps over the bolts, remove or pop them open. Using a small crescent wrench unscrew the nuts from the bolts. Alternate side to side when unscrewing this will be much more important when reinstalling the water line repair bolts but alternate anyhow.
One other common design that is considered "washerless" was made famous by Delta and copied by several other makers. It uses little "cup" seals that fit over springs recessed in the back of the valve body. The springs press these "seals" against the cartridge and regulate the flow through little tapered openings in the cartridge. If you have one of these and it's dripping, changing these springs and seals will usually correct it. Here's a tip. Once you have the cartridge out of the way, insert a phillips screwdriver into the seal and pop both the seal and spring out. Stick the new ones on the end of the screwdriver to help guide them into place. This is especially helpful if you don't have long slender fingers.
Clean the hole in the gutter railing first. It must be free of any debris, so you may want to clean the entire drain channel using a proper cleaner. In this way, you will have a clean surface area which will allow you to repair the hole more easily.
Be certain that the bathroom exhaust fan vents to the outdoors, not into the house or attic. If the exterior vent dampers don't operate properly or water line repair don't seat well have them fixed or replaced.
Plumbers should always have a durable and long lasting ventilation system ready for any job. Having clean air in ready supply can make many tougher jobs go much more smoothly and will cut down on the risk to the plumbers considerably.
Sometimes there can be complications of broken toilet flanges, closet bolts or rotted sub-flooring. If you find any of that in your situation, it will need to be repaired before reinstalling the toilet.