over torquing bolts in aluminum will always be a bad idea. the torque specs in the manual are for factory bolts - if you use bolts that stretch less or bolts that gall worse you will need to use less torque.
the weak part is almost always not the fastener its the threads in the aluminum. on stuff i hand fabricate [im making a steam service throttle in brass and copper right now] i prefer studs so the threads in the part are hardly ever moved. if I'm working in brass i solder smooth studs in so i can easily drill them out without having to go oversize if I'm doing aluminum i use a steel stud. i rarely use stainless bolts as the threads of the bolt will often damage the aluminum threads. use a very high quality stainless fastener and follow there torque guidelines to avoid aluminum thread damage. there are a few places on my harley where it comes with studs and nuts - i have redone a number of additional fasteners as studs and nuts. especially parts i end up removing a few times - ill get studs and nuts - the aluminum parts will last much much longer with a stud. it might not look flashy - but it looks like the mechanic actually knows what is going on. steel drilled studs with stainless slit nuts and stainless wire - that looks the best. but i only do that on steam service stuff... bike stuff i use a steel stud, stainless nut.
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