First off are you doing actual portraits in a studio type set up or walking around and shooting random shots at a family or other event? Do you shoot indoors all the time, outdoors or mixed?
You can work with AV mode. When I shoot outdoors I use AV or M mode, depending on my mood. Indoors AV is OK but you have to be careful with the shutter speeds. Depending on how dark it is, your camera will maintain the aperture you select by adjusting the shutter speed automatically. This will happen whether your flash is on the camera or not because the camera's light meter has nothing to do with the flash. It just meters ambient light. Flash uses is a different exposure system. Set the ISO to 100 when it is dark and see for yourself. Shutter speeds get very slow and people have gotten into trouble if they were not familiar with this. Most people who are into flash photography use M mode on their cameras when indoors. Outdoors too.
I never use auto ISO and I'm not sure I would shooting indoors with flash so I can't help you much there. The fact that you use it probably saves you from those slow shutter speeds I talked about. What does the ISO go up to when you are indoors?
Evaluative metering. You are probably talking about the camera? Makes no difference as your camera's light meter has nothing to do with the flash. This goes for centre weight, spot, etc. It just meters ambient or existing light. Your camera and flash both have specific jobs and neither cares about what the other is doing. Does that flash have ETTL? If so you are probably in ETTL. In ETTL the flash pre fires before the actual flash exposure. It is so fast you can't see it. The system evaluates the light reflected back and then determines the correct exposure for your "subject/s". Again the cameras light meter has noting to do with this.
You will notice I had "subject/s" was highlighted. That is because the flashes job is to exposure your subject correctly via the pre flash. When you have your camera mode evaluative and press the shutter half way or all the way the meter is evaluating the entire ambient scene, just like everyday shooting without a flash.