Here is my take on the issue. Wireless is great and has many benefits. However, the only people who benefit from being primary wireless are deckers, riggers and anyone running reaction enhancers with Wired Reflexes. If you are running a Smartgun and implanted smartlink and your dice pool is less than 8 dice, you pretty much need that bonus to defend yourself.
Primary shooters like Street Sams and Gunslingers with minimum dice pools of 14 without wireless smartlink can afford to turn off wireless once in a while and go wired. You don't need wireless to get the +2 accuracy, only the +2 DP.
It's all a matter of character design and just options for people to work with. For example, I have a character who has wireless reaction enhancers and wired reflexes, but doesn't use any other wireless in the rest of his gear. Neither his weapons or his vehicles. Everything (except comms and cyber) are all wired or throwback. Its a character choice based on ____ reason and not really something that is a staple of the 6th world. It's not really metagaming, either, because that is his entire design and character flaw. Sure, he is missing out on something, but that is what makes him unique among modern runners.
So, running wired or wireless is a choice. If you want to break it down to game mechanics, running wired only will only hinder you if your relevant skills are not up to par - but you would be immune to all but direct attacks on your commlink, unless you turn it off. Running wireless is greatly beneficial and will enhance already great skills and give bonuses that would cover weaker skill focuses (like perception related and social tests). However, running wireless opens you up to the matrix and the possibility of being hacked and traced.