Are they looking to make the life of hobbyists more miserable?
No, they're not looking to do it. Hobbyists will be collateral damage.
I think that is almost certainly true. CadSoft were a tiny outfit, they probably regarded being hobbyist friendly and word of mouth recommendations as a useful way to grow sales. But if you ask the product or marketing manager at a large corporate, hobbyists are not even on their radar. They are looking at revenue figures of $millions, they have zero interest in anything else. Marketing is done through very market specific channels, eg. trade shows which hobbyists are not even aware of. Possibly PR departments might pick up on hobby use. But "also used by hobbyists" is actually not a great sales angle if you are trying to sell a professional package into large organisations.
The background to this is US tax policy. US corporate tax is 40% but not on profits outside US. So US companies funnel profits into offshore companies and build big cash reserves, rather than bring it back to US and pay 40% tax. Autodesk profit is around $250 million, cash reserves in the region of $2 billion. If they paid $30 million for Eagle, that is peanuts. They still have the option of buying another product, or developing their own. Eagle was cheap and available to buy, so maybe a no-brainer. Autodesk also bought a string of other companies, such as Tinkercad. They also have 123D circuits, which is a cloud based ECAD.
All this makes perfect sense from the point of view of Autodesk, and the direction of the market in general. Companies are getting used to subscription model for Microsoft products, cloud services etc, and the bean counters even prefer it. Unfortunately, hobbyists and those one-man band companies don't enter into the calculations, they will have to make do with crumbs off the table.