It is separate.
I have a 2018 and have been using the wireless connectivity to Naviplus CarPlay for several weeks without issue. However, I decided to install the wired connection today while retaining the factory USB / aux port. I wanted a clean and reversible install and don’t mind losing the wired connection to Entune since I now use CarPlay exclusively - although I read that other installers have spliced wires to potentially give both worlds or have the ability to tap the truck’s beefier 5V power supply and combine with the data signal from the Naviplus.
First, I pulled up and out the double cup holder in the center console (4 tabs - open the door, hold the door with both hands and gently but firmly pull upwards and slightly forward to release). I fed the female end of the USB cable from the center dash and underneath the center console (gear shifter) to this area below the center cup holder (green circle). You can also pull the center console (gear shifter) section up very easily if you are either already in the middle of the Naviplus install or have taken the lower dash apart again. I then disconnected the brown MX39 style connector (circled in purple) underneath the grey plastic cover. To access it, simply squeeze to release the recessed tabs (2 red arrows) securing the grey plastic cover with a set of thin needle nosed pliers.
View attachment 2451261
In the meantime I had purchased the PAC USB-TY2 cable from Sonic Electronic
PAC USB-TY2 Toyota OEM USB Port Retention Cable for $11 excl. shipping.
View attachment 2451262
I then connected the unplugged brown male end that leads to the USB port, to the brown female connector of the new PAC USB-TY2 cable. I hooked the other end of the PAC USB-TY2 cable to the USB female end of the cable connected to the Naviplus.
View attachment 2451263
Secured with a couple of zip ties and dropped the drinks holder back in. Now that gives me the factory look with charging and wired connection to CarPlay.