We have a 7 month old GSD named Hudson that we have had since he was 3 months old. We have done our best to raise him with our two girls (ages 9 and 6) and our 2 cats. Searching for better ways to train and live with our dog, I luckily stumbled across the Leerburg videos. We have watched the Basic Dog Obedience, Your Puppy 8 Weeks to 8 Months, Estabilishing Pack Structure with the Family Pet and have read the articles on Groundwork. We are slowly moving him from Royal Canine to Orijen Puppy (Grain Free) and he has not been altered, yet? Unfortunately, after doing our research, I realize we have made some unknowingly mistakes. Before finding Leerburg, we have been trying to socialize him with other dogs, people and children. He has never been in a dog fight and gets along pretty well with other dogs and people. Overall, he is a pretty good dog. My QUESTIONS are as follows.
1) Do we start totally from scratch as if we brought a dog home?
2) Do we treat him like a puppy we just brought home or an adult dog because of his age?
3) In regards to Groundwork, is it okay for my wife to act as the pack leader, mainly because I will be deploying in the near future?
I could be wrong, but I have not seen any Leerburg videos, ebooks, or articles on what to do when you have already been living (the wrong way) with a puppy/dog but want to get on the right track.I feel that the answers to these questions will help my wife and I figure out which videos to start following. Any help or insight would be great!!!

That should have read "is it okay for my wife and I"

Tell us what you see as the main challenges with the dog right now.

Yes, IMO, you are both pack leaders, and it's good that you will both be on the same page.

Also, what training have you done? Are you marker training?

I tried to start some marker training yesterday (from the hands and mouth with no treat pouch) and it went pretty well. The only problem is that i tried doing the down (without verbal command) in the grass, but he was more interested in eating grass. I assumed it could be because we are changing from Royal Canine to Orijen and his stomach might not be agreeing with it yet. The only training he has had so far is a puppy class at Petsmart.

I can tell he does not respect my girls. Also he is starting to jump up a little. And when I try to get him to sit or down with a treat w/out a voice command by holding the treat over his head or on the ground, he tends to be a little more mouthy than in the past. We now have him on a lead inside the house all the time. As for the cats, he gets no interaction with them unless they walk by.

Welcome to the forum. If you have just introduced marker training, you might still be in the "charging the mark" phase and could be introducing commands a bit too early, especially outside. I found it helpful to begin inside with no distractions before venturing outside.

What types of problems are you having with this guy which leads you think you need to go to square one?

We are not really having problems. I just want to get on board with the leerburg method of training (mostly, having our pack be the most exciting and center of his world).

We were typing at the same time... I know you will find marker training to be very helpful with the jumping issue (all issues, really...) How much daily exercise is this guy getting?

Less since watching the videos and reading the articles. My instinct was that we needed to start from the begining and start to control his day-to-day as pack leaders. Before that, we would either try to play fetch with him off leash (in military housing with distractions) or take him for at least a 20 minute walk everyday.

Also, what did you mean my "charging the mark" phase?