I actually had some time this morning to debug this further. It seem TestComplete thinks the controls are a little bit higher in the page. When I added some click actions, I could see the cursor moving and I guess clicking things though that is not where the controls actually are.
I opened a ticket with SmartBear and it seems the issue might be because of the machine resources preventing Chrome/Edge from performing the Front End stuff basically the browser is in a frozen state. I did try reducing the open applications on the running machine and it seems to have solved it. I'm just worried now that the resource requirement for our tests to work seem to be higher than before, or possibly TestComplete might be consuming more.