Dan,
I'm afraid that it not uncommon to encounter this with kits for the reasons suggested by Redpmg above. Both quality of design and materials can vary, wooden boat kits don't commonly don't click together like injection moulded plastic kits.
I suspect the manufacturer may play it safe by making the slots a bit small as it is a lot easier to simply open them out compared with rectifying a loose fit with gaps. Usually this simply means more fettling as part of the construction process which is all part of the fun! I would be inclined to bite the bullet and persevere, you will find it takes less time that you think when you get going. Looking at the online construction photos:
**LINK**
I don't see a huge amount of work involved and the finished product looks very attractive.
As well as filing, a sharp craft knife carefully applied can shave off unwanted material quite rapidly.
I have noticed with the SLEC Fairey kits that the quality of wood is superior to the offerings of other mainstream manufacturers that I have seen – but then they are a specialist wood supplier.
Colin