It is not uncommon for today's technical talent to change jobs every few years. You need to seriously evaluate how a position will impact your short-term marketability. Consider where you would be if you were to leave the company as early as two years from your starting date. Gone are the days of working for a big IBM-type company for 20 years. If a company is offering you a large stock option, then be prepared to commit for four years-when your options are fully vested.
Some companies grant additional stock options based on performance.
If you prefer your bonuses in stock options, then ask for it. Also learn about the frequency and method a company uses for calculating bonuses. Read the details of a company's 401K plan. If yes, then these contributions should be added to your total income for the year. It's a big financial perk if a company will pay tuition fees for your graduate degree.