One day, you will find yourself going to your practice area and thinking to yourself "ugh, time to run through
Basically, as long as you hold the guitar in your hands and play some music, it is not time wasted. This will help you improve too!!
For the past few months, I have not had the time to go through any lessons. I've been practicing some lessons I did go through, some songs I've learned, and jamming along with some songs. These practice "sessions" last from 5 mintues to 30 minutes - probably 10 minutes on average. My ear has improved, my speed has increased, and my improvisation has gotten less redundant.
Could I have made better progress with a "structured" routine? Certainly. But my situation didn't allow for it, so I made the best of what time I had.
So if you find yourself getting bogged down, rather than skipping practice because it's becoming "work", use the time to do something with your guitar, even if it is just aimless "noodling".