You’ll be fine to fix vertical battens onto the pebble dash, any variances will be evened out over the length of the boards, which I dare say will be 12ft long or so.
Important to remember when cladding:
Orientate the boards so you have the heart out. Ie the growth rings concave to the outer face. This will enable you to use a single line of fixings (preferably stainless steel screws with larch) about 35mm from the top edge. Reason being, the wood will then typically cup into the building as it dries and seasons, thereby increasing the clamping force of the boards onto each other.
Allow for a 50mm overlap, so your fixings are hidden by each successive board.
Join boards on a vertical batten and scarf them with 45deg cuts, so that the adjacent board holds the other edge in to the building.
Think about corner stops to ensure the end grain of the boards are covered. Vertical 100x50mm larch fastened to each corner will just about do it. Also think through the weatherboard stops around doors, windows etc.
I’ve done a lot of weatherboarding, using oak, larch, western red cedar and notice there are very few carpenters who understand their medium enough to fix this type of cladding properly!