Hi,
Unfortunately there is no direct HW support for sending fixed number of pulses on the MPC5606S eMIOS module.
You can use some kind of SW way to stop the channel.
For example use one eMIOS channel to generate pulse output signal (with desired duty and frequency).
Generated output signal will be externally connected to the other eMIOS channel input; this channel can be set for MCB mode counting external signal. After programmed number of pulses are counted, the channel flag is set (interrupt can be invoked if enabled) so you can stop the first channel.
Also channel disable feature can be used to disable PWM output, see more in channel ODIS and ODISSL bits. Then the above mentioned channel flag can disable PWM output by HW.
BR, Petr