I think there are already many ways to impliment this :
-Using containment jars, by sort of mimicking the cow functionnality in order to produce honey, maybe with a cooldown to make it fair;
-Using Whirlisprig, making beehives a "natural" block to let them reproduce honey by looking at the (filled) hive;
-Using spells, we can already use the Cut spell to have honey combs, but not honey bottles, so maybe by adding a way to use interact + whatever item is on a pedestal to use items with spell turrets for exemple;
-Using a new glyph, a glyph that would allow players (and turrets) to put anything in a bottle, ranging from potions from jars to honey or even milk with the Farmer's Delight appropriate addon.
I really think it is important, if honey farming is to be added, that both varients, bottled or in combs, are obtainable by using Ars Nouveau's many contraptions. I especially think it is something to be added since we can already get the comb varient using the Cut spell, the bottled version should be something accessible in a "Ars magical way".

with bottles