When you first boot up while connected to your PC, the flashing red X (and the little disk drive down in the lower right corner) are normal, but should cease as soon as the device is fully booted, at which time, you'll just see the same screen without the X or drive.
I could use some clarity on this statement:
" on mange my device it shows how much storage is used but doesn't show what is stored.. "
On Manage, it should show three different tabs at the top: Items on device, Remove items from computer, and Install items from computer. If you click on Items on device, are you saying that nothing appears in the list, but that you see the "Free space" at the bottom left corner? This should list all items installed on your device, in particular "Applications" which is our concern at present.
That the two system files are present is good. IIRC, ALL Nav2 generation devices write a ttgo.bif file, even if it isn't present, when booted up. Why yours has none is a bit of a mystery. Possibly an incomplete boot.
ttgo.bif is an inventory of all of the various features, maps, etc. present on your device, and it is maintained by the device itself. Again, IIRC, TomTom Home makes some use of that file, and if absent, may be why Home has so much grayed out.
Just curious - what version of TomTom Home are you running? 2.21 (specifically, 2.21.19.1592948) is current, and they've been updating it all along.
Here's a screen shot from one of my Nav2 devices: