This depends on your personal circumstances. The stimulation induced by moola shodhana is sufficient to start off a chain reaction of peristalsis. Therefore, those who are constipated are advised to practise before trying to defecate.
If you have a regular motion then you can try moola shodhana after passing stool. This will further stimulate the associated nerves and muscles and lead to the best possible ev acuation and cleanliness of the anus and rectum. The best time is early in the morning.
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