Table 31 in SPRUEC6G says "For all bootmodes, the PLL is set to x16 mode." This does not correspond with what I see on a silicon revision 2.1 DSP (DEVID.VARIANT=4).
If I connect an emulator to a DSP using boot mode 9 (DEVSTAT register value 0x00000022), trigger a warm reset for the DSP, and let the bootloader run for a while -- with no SRIO transactions being sent to the DSP -- I see the PLL1 registers stay in their reset values (PLLCTL.PLLEN=0, PLLM.PLLM=0, and so forth).
Is this the expected behavior? Is the application responsible for programming the PLL, even if it wants x16 mode?