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If clicking a lily pad with a block does nothing, check these points in order.

Checklist

1. Is there water directly below the pad? The mod only converts a lily pad when the block beneath it is a water block. Pads over other blocks, or over a gap, won't convert.

2. Are you holding a placeable item? The pad responds to items that can be placed. Tools, food and similar items won't trigger the swap.

3. Are you right-clicking the lily pad itself? Aim at the pad, not at the water beside it or the bank.

4. Is the mod actually loaded? In vanilla, a lily pad has no special reaction to being clicked with a block. If the lily pad behaves like vanilla, check your mod list in the game's mods menu.

Still stuck?

Try a different lily pad on a deeper, plain water spot to rule out unusual terrain.
Test with an ordinary full block first. If that works, the earlier item may not be placeable in that spot for other reasons, such as a normal vanilla placement restriction.
If another mod changes lily pads or water, test with only this mod installed to see whether they conflict.