Hi

As a result of my investigation:
http://discuss.flexget.com/t/does-flexget-cache-the-templates-in-the-config-file/1607/2

In short:
Adding a new tvshow to series in config file and using emit_series with from_start does not emit the new tvshow. A combination of both begin setting and from_start also does not work.

Setting the begin episode in the config and removing the option from_start works. Using the cli to set the begin episode also works (while still using both the begin setting in the config and from_start option).