Hey, if you have a problem with FP3 for Cognos BI 8.4.1 (Windows 2003) so it's a known bug and here is fix. Just after installing FP3 change these parameters.
In the ../bin directory of the C8 install locate the bootstrap_win32.xml file. Near the top of the file you will find the following.
-->
<!-- uncomment the following for large c8 instances start, the following is just an example -->
<!-- bootstrap startupDelaySec="25" pingRetries="40" pingRetryIntervalSec="30"-->
<bootstrap startupDelaySec="25">
Change the last line to look like
<bootstrap startupDelaySec="25" pingRetries="100">
Regards,
Stepan