In most cases, replacing bad channels is not necessary in MEG analysis, and not recommended if the objective is source-level analysis. The least amount of pre-processing is always to be preferred.
Using SSS/tSSS (MNE-Python function mne.preprocessing.maxwell_filter, available from Brainstorm in the process menu Pre-process) would also replace the bad channels.
Maybe there is a way to export other types of data for used in mne-python?
Functions out_mne_channel.m and out_mne_data.m.
If not, can brainstorm have other interpolation methods for bad channels?
You can access all the data, so you can implement all the custom tools you need:
- https://neuroimage.usc.edu/brainstorm/Tutorials/Scripting
- https://neuroimage.usc.edu/brainstorm/Tutorials/TutUserProcess
For your future questions, please create a new thread for each new topic.