I've sold a few lower-valued domain names using GoDaddy as the intermediary at 5% commission. These are generally deals I want to close quickly, and I am willing to give up $xx or $xxx for the sake of expedience.
The one issue I have had with using GoDaddy and its custom checkout link is that the deals utilized a Dan.com url instead of GoDaddy. This would be confusing for a buyer who is told the deal will be transacted via GoDaddy but then had to click through to Dan.com. I explained it by saying "We can use Dan.com (owned by GoDaddy) to transact."
As of today, GoDaddy is now utilizing GoDaddy urls on the custom checkout link. Buyers won't be routed to Dan.com, but instead, they will be sent directly to a GoDaddy-branded checkout page via a GoDaddy.com link. The checkout page is exactly like the standard checkout pages people would find when buying domain names and services from GoDaddy.