Are they pot bound in the root trainers ? and what height are the plants?
When do you normally plant out, and do you plant them outdoors or in?
Why I ask is; I would have thought 5" pots would be ample.
It doesn't matter about the depth of the pot so much providing the soil levels are similar (but not less).
Basically it is just a case of somewhere for the roots to run be that horizontal.
In my case; I avoid such a situations by working my sowing dates backwards from my planting out dates.
This way I have less problems with storing / hardening off seedlings, generally no need to pot on in to bigger pots other than those I use at pricking out time etc.
That is they are growing the minimum of time possible from sowing to planting out.
In case you didn't see my tomatoes in another thread, these were mine yesterday and they will remain in that size pot until planting out time in about 5-6 weeks time when they will be about 6"- 8" tall.