In every T5008 slip, you have to make sure to choose the correct security type: Investment or Capital gain. This information doesn't usually transfer properly with CRA data transfer. You also have to make sure that box 20 is filled in every slip. When you choose the type of security, it will direct it to the investment line or the cap-gain line and both will result in different refund values.
If you still have issues after following this process, please contact our support line: https://support.turbotax.intuit.ca/contact/
I hope this was helpful
