These are real issues, and need to be addressed, but I have seen no problems that don't have reasonable technical solutions.

Waste should be stored on secure, guarded facilities, not buried underground as is currently planned. Waste needs to be monitored and stored for possible future technologies to deal with, not "filed and forgotten." Reprocessing facilites could be enclosed in these same areas to reduce transport issues. Such reprocessing would reduce the overall waste volume and hazards as well. Maybe old military facilities in remote areas could work for this.

Air attacks from civilan aircraft could be handled quite easily. A containment shell could be designed for an aircraft collision. Aircraft have a lot of kinetic energy, but are fragile constructions.

If that's not enough, the old barrage balloon concept--vertical cables surrounding a target--would stop any collision attack other than from directly above (almost impossible for a normal plane). While simple, such balloons could be high-maintenance, and a series of concrete or steel towers would do the job, too. Be a bit more expensive, though.

Nuclear power has, all things considered, an excellent safety record, particularly for systems with containment shells. Even if you set aside the whole CO2 issue, people are being harmed and even killed by coal power right here and now. The Sierra Club's tally of coal power issues makes Chernobyl's one-time casualty count seem like a walk in the park.