Yes and no. Stamp duty is a cost there, but it's a cost that will be the same regardless of how I split up the money I'm going to invest, and so it doesn't affect the decision how to split it up. E.g. if I'm going to invest £6k over a period of time, I might make six purchases of £1k each, five of £1.2k each, four of £1.5k each, three of £2k each, two of £3k each or one of £6k. And the stamp duty paid will be six lots of £5, five lots of £6, four lots of £7.50, three lots of £10, two lots of £15, or one lot of £30 respectively, which in every case totals £30 of stamp duty to pay. Basically, paying £30 of stamp duty is unavoidable (*): in a HYP, you're going to pay 0.5% of the amount you invest regardless of your choice of minimum purchase size.
Contrast that with commission: at say £10 a trade, those various purchase options cost £60, £50, £40, £30, £20 and £10 respectively. With the expected annual income from the £6k invested being something of the order of £300, the difference between the cheapest and most expensive of those is about two months' worth of income. Not really major, but not totally insignificant either, and so it might affect one's decisions about purchase sizes in a HYP.
By the way, I do realise that many readers will have understood that from the exchange between grimer and Arb - this longer explanation is just for the benefit of any who haven't!
(*) For main-market UK shares - one can avoid it by being more 'adventurous'! But again, that is a different issue than the minimum purchase size...
Gengulphus