Are there any stipulations for the daily recitation of Paduka Sahasram? If we are unable to recite that in the morning, can it be recited in the evening?

There are no stipulations for daily recitation of Paduka Sahasram. Since this is a Stotram, it can be recited at any time – whether it is morning, evening, or nighttime.
If Paduka Sahasram is recited seeking a benefit, it is better to recite it in the morning before partaking food. Besides this, a stotra pata can be recited at any time.