I may not be understanding your question right but there is no 'constraint' required between any point during configuration and a change to DEV_CLRn.
Toggling DEV_CLRn during configuration won't have any effect on register states or the configuration process. Toggling it once the FPGA is configured will cause the FPGA to behave as stated in the 'Optional Configuration Pins' (Table 9-23 in the
configuration, design security, and remote system upgrades in the cyclone iii device family (
https://www.altera.com/content/dam/altera-www/global/en_us/pdfs/literature/hb/cyc3/cyc3_ciii51016.pdf)). So, assuming you've enabled the device wide reset (within your project) it will clear the registers.
The 'Configuration Requirement' section from the same document (page 9-5) discusses the POR times for various configuration schemes. Also see the 'Estimating AS Configuration Time' section on page 9-20. This discusses the configuration times you can expect in AS mode.
Cheers,
Alex