This is the cause of your problem. As per the refillable cartridge instructions, the air vent plugs must be removed after filling cartridges with ink, and BEFORE installing them into your printer, or else a vacuum will be created and ink will not be able to flow out of the carts. Now that you have removed the plugs and the air vent holes are open on all carts, you will need to do a few cleaning cycles to get ink flowing and all positions printing on your nozzle check. I expect you will have a perfect nozzle check after 1-3 cleaning cycles.
Best regards~ Dana