Thanks for flagging your concern Yidna but as you have realised in this instance that isn't going to be an issue because all stock control is on the branch based system.
There is of course an issue as you have highlighted, that a one off item sold online but not unpadded on the branch system when then next CSV is generated gets relisted online and wont be corrected again until the branch stock is amended. My client is happy to run with this because they think the likelihood of the item being sold twice within hours is remote.