You've got it right. The pic of the quick connects attached to the side of the manifold is how they're stored when not in use.
When you're done charging & testing be sure to relieve all pressure from the gauge set. Leaving pressure in will weaken hoses & can affect gauge calibration.

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82 300SD 202K
82 300SD 233K
83 300TD 340K
82 300TD 98k euro (parts on the hoof)
85 300TD 282K
83 300TD 197K

Okay, thanks John. I went out and checked and sure enough the side ones are just holders. There is no holes in them.

Also it appears I had the valves closed at the port. I had them turned counterclockwise. To me that seemed like this would be open. So I turned them fully to the clockwise and it is evacing right now. It pulled down to 29hg pretty quickly. (within a minute)

Turning the port valves clockwise depresses the valve in the 134a fitting, just the opposite of how you'd expect a valve to open. I've seen lots of people make this mistake, that's why I mentioned it.
Let it pump down for at least an hour, then check for vac leaks by watching gauges after closing valves & turning pump off. Good luck

__________________
82 300SD 202K
82 300SD 233K
83 300TD 340K
82 300TD 98k euro (parts on the hoof)
85 300TD 282K
83 300TD 197K

Thanks John.

Now a question about filling with refrigerant. I've already been told the warnings about using cans and switching them out, but I'm going to go ahead with them as many people have had success with them.

Do I screw the can directly to the open screw on the yellow hose fitting without connecting the vacuum pump?

If you look at my first pic there are two fittings where the yellow hose goes. One gets connected to the vacuum pump I assume. Is the other to hook the can up to? If so directly?

You disconnect the vac pump from the yellow hose. You will need either a universal can tap that wraps around the can puncturing the side, or a 134a can tap that screws to the top of the can. It has a screw which you turn down to puncture the can then turn back to allow the refridgerant to flow through the yellow hose into the manifold & through the blue (low side) hose into the suction side of the system. When you first start to introduce refridgerant do it slowly so you do not rupture the desiccant bag in the drier. You can't just hook the yellow hose to the 134a can as the can must be punctured to let it out. You also want to bleed the air out of the yellow hose by depressing the schrader valve at the top connection on the manifold once you have 134a pressure in it, before letting it flow into the system. Be careful not to get it in your eyes!!

__________________
82 300SD 202K
82 300SD 233K
83 300TD 340K
82 300TD 98k euro (parts on the hoof)
85 300TD 282K
83 300TD 197K