I've now replaced every "Power Net Portal" component with a standard "Net Portal" while keeping the designator VDD. This update should now have your VDD objects behave as standard Net Portals (i.e. not being excluded from BOM/PCB automatically).

Please refresh your project view or schematic to verify the changes. Let me know if you need any further modifications.

Can you connect LED1 to a Net portal called VDD?

I've connected the VDD pin of LED1 to the Net Portal VDD. You should now see a net linking LED1 (VDD) to VDD throughout your schematic.

If you don't see the connection immediately, please try refreshing your schematic view.

Can you rename LED1 to LED_1_1