All I have is DNI, except possibly for nanohive, IDN about that
Let's start with commlink - it's implanted, and have wifi access
But then we have control rig. this is headware cyberware. Implanted below the skull bone over the brain. You say it's DNI - like most things, and that's ok for the operation of the thing, but how do you perform maintenance of the piece? do you go for surgery every quarter? It's bound to have firmware upgrades at the least, and I suppose that re-calibration to your brainwaves.
Standard procedure allows that via the wifi unit. lacking that only direct connection.
DNI and Wireless Functionality - Augmentation pg 31
Most cyberware comes with an integral direct neural interface,
allowing the user to mentally access and control the implant.
This is the primary means of control for most cybernetics and
requires the implant have a built-in computer. Obviously, not all
implants require such interfaces. Some, such as dermal plating
and bone-lacing, are passive augmentations and don’t do much
but make you tougher or stronger. Implants that don’t require any
sort of mental control still come equipped with RFID sensor tags
as a matter of course.
Wireless functionality is complementary to direct neural
control, allowing diagnostics checks, connection redundancy in
case of damage to the neural relays, software/firmware updates,
and non-invasive monitoring of the implant’s performance.
Almost all cyberware requires careful maintenance and regular
check ups, and wireless connectivity is invariably cheaper than
cutting someone open just to check on an implant. See Wireless
Connectivity, p. 304, SR4.
Since most implants are computerized to some extent anyway,
integrating inexpensive wireless technology is the default
option given its usefulness in case the character is ever unconscious,
suffering from extreme trauma, or simply wants to have a
non-invasive checkup.
Nonetheless, for the paranoid, it is relatively easy to have a
street doc disable or remove wireless links. Note, however, that
this makes care and maintenance more difficult. Besides requiring
invasive surgical procedures for inspection and maintenance, the
gamemaster may apply a –1 to –3 dice pool modifier to any relevant
tests the cyberdoc performs. Note that some implants may
not need a complete wireless link—built-in RFID sensor tags can
monitor the implant and report any problems. The gamemaster
determines what implants/devices incorporate wireless links.
I didnt have read Augmentations so far. Commlink IMO would be acessible from outside, it may be implanted but ...I imagine it like the comunicating device you may had seen in Bloodnet. Just an opinion.
Control Rig would be connected to commlink, dorectly, the way sim module is, so upgraded throught commlink.
To the wireless capability, if I remember right, there is Cyberware maintenance listed in the Signal Table in the rules, Signal 0, this means 3 meters to achieve mutual signal range for hackingc (so now I understand the meaning of it

). Jamming would possibly not happen, since the input is only needed when upgrading or providing maintenance. EMP is something...in this case I require device rating roll against EMP thresshold in my games, otherwise damage happens to cyberware.