Proceed to enter your T5008 losses as per issued.
Then fill out your T2125 accordingly to your income & expenses.
Once both have been filled out you should not get the warning for your T5008 slip.
I believe the warning given for the T2125 will not prevent you from Netfiling, but it is letting you know that you need to register for GST/HST that you have collected to remit to the CRA. As your income is above the $30,000 threshold.
The following link directly from the CRA will guide you through the process:
If after taking these steps you are still encountering an issue, then contact our phone support team
as they have the option to view your screen and troubleshoot what could be causing these warnings.
