First, I am not as experienced at growing tobacco as some other plants. I have only gone through a couple of grow cycles. So consider my thoughts as very general horticultural advice.
That said: What I do (with just about all plants I grow with a few exceptions) is take the lid off shortly after most have germinated, keep the soil fairly moist (I tray water- and use a sprayer if I need to get moisture to the surface fast), and make sure they get lots of light so they do not get leggy. (Light also discourages the growth of micro-fungus to an extent, at least supposedly). If you leave the lid on too long the seedlings can become acclimated to a very humid environment. When you attempt to plant them in soil, they can experience shock due to the rapid drop in humidity (unless of course you "harden them off" which just means that you slowly decrease the humidity to your ambient humidity over a period of a week or so. Many propagation chambers have vents for this purpose).
I have not experienced this with tobacco, but with most other plants, the other concern with keeping them in a propagation chamber for too long is stagnant air. When the inside of the chamber is warm, humid, and not moving, you have a breeding ground for micro fungus. Once you get a fungus problem they can be hard to get under control.
So, moral of the story, I would not leave the lid on too too long. You have some wiggle room, I tend to slack off for a week or two after germination and not remove my lids. Any longer than that I start to worry about fungus. The point of the humidity domes is just to make sure moisture gets to the seeds and to prevent the soil surface from drying out. That's it.