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I've only heard this is the case in churches that have their patriarch in India. In Protestant, Catholic, and Eastern Orthodox Churches the faithful keep their shoes on. I understand the clergy in Oriental Orthodox churches wear liturgical slippers that do not contain leather.
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In the Roman liturgy, the faithful keep their shoes on. However, it can be removed during liturgy as part of a custom, like in the Alliance of the Two Hearts.
It is interesting to note as well that people also customarily remove their shoes when going to a perpetual Adoration chapel.