Due to a problem in the Quartus® Prime Pro Edition software version 25.1, when you compile a design that instantiates the GTS Dynamic Reconfiguration Controller IP, you might observe a similar critical warning as the following:
Critical Warning(23414): Memory depth (8192) in the design file differs from memory depth (1046) in the Memory Initialization File "xxx/support_logic/dr_top/synth/dr.mif" -- setting initial value for remaining addresses to 0
This is caused by allocating much more Nios® V data memory than needed (i.e, the MIF size), and the excessive memory region that doesn't store any MIF data will be zeroed out.
Although it's reported as a critical warning, it doesn't affect the functionalities of your design. It's safe to ignore the above problem.
There is no plan to fix this problem. The critical warning might be downgraded to a warning in a future release of the Quartus® Prime Pro Edition Software.