I have been on thyroid meds for several years - from Synthroid to various generic brands. I was concerned about taking my medication and right after that each morning having my 2 cups of coffee (although I usually don't eat breakfast for an hour or so after that). I have found it difficult to work in my morning coffee, eating breakfast, taking my meds appropriately, AND trying to get to a gym for a water workout all before 7 AM!). I am a junior high teacher and have to be at school for "yard guard" (outside duty)

by 7:15 several days a week. So to get all that in AND take my thyroid med an hour before I do anything else, would have necessitated my getting up at 4:30! I can't get to bed by 9:30 in the evening to get in at least 7 hours of quality sleep - too much other stuff going on in my family sometimes!
When I asked my doc about it, he said that if my thyroid lab numbers are in the acceptable range (and they are, and have been for several years), not to worry about it. It's working, so I don't have to "fix" it by doing something different.
So I just take it when I get up about 5:30, have those coupla cups of java, get to the gym (on virtuous days

), and eat a quick breakfast in the car on the way to school - hard-boiled eggs with some veggie finger foods, or an Atkins bar, or cheese cubes. And my thyroid values have been good for several years.
But whoever said on here that you have to work out what works best for you, is right. And hopefully you have an informed doctor who will work with you and not pass down decrees from on high (you know, the ones who think that M.D. means "Medical Deity")
Good luck, and be healthy!