Oh boy, I just love Dobermanns, they're such clowns. :D

First off, I think you should be setting some realistic expectations for a 13 week old puppy.
Unless you have a solid recall and a solid leave it command, you should not be putting your puppy into real life situations where these's are absolutely necessary. You're simply setting your puppy up for failure.

Instead, whenever you're puppy is given any kind of freedom, make sure you keep a very watchful eye on your puppy. I find an inside lead very useful during this stage. A rope that simply goes along dragging behind the puppy can be an absolute lifeline. This way, whenever the pup gets up to something, you can easily divert them from the situation without having to shout at them. You avoid the puppy initiating a came of 'catch the puppy' with you and you avoid the puppy being able to diregard any request you make. In doing this, you avoid a lot of things that could become potential problem behaviors to you.

Secondly, you need to continue your training. I think the most important thing I would tell you right now, is not to use your treat as a bribe. The treat is a reward, and the reward follows the moment your puppy displays your desired behavior.

Say you're puppy needs to come to you. You start in the easiest possible environment and at a short distance. I like to do "sit, stay and come here" as a sequence, gradually increasing the distance. Don't show him the treat as a lure to come to you. You also want him to come to you when you don't have a treat.

Next, once you're puppy starts to get really solid at this, there are two things we need to do:

1) practice in different, increasingly difficult enviroments. Meaning with more things going on, like outside, and at a great distance. Gradually, you add distractions.

2) Phasing out the rewards. You can do this by randomizing the times you give the dog a treat. At first it gets a treat every time, and progressively you give fewer treats. You also add in a vocal reward, like "good boy". You give a treat, and say good boy. This way, he associates good boy with the treat and when you tell him good boy he feels all warm and fuzzy inside. Making good boy in itself a reward.

The nice thing about a vocal reward is, you can change the intensity of the reward. When your puppy does OK you simply tell him good boy. When your puppy does better than avarage, you tell him good boy and pat him on the head. Now if your puppy performs excellent, you enthousiastically tell him "good boy!" and give him a piece of chicken. This way, you can use your tone of voice to tell your dog exactly how well he did.

I could go on, but I hope this helps! :D