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Firstly, welcome to the world of PSoC 6, and yes, the short answer is that PSoC 6 is definitely a bigger chip, with upto 12 UDBs compared to the 4 or 8 UDBs on PSoC4200 families. You also get more number of digital peripherals, for instance upto 9 SCBs which can be used to make digital communication peripherals like I2C, UART, SPI.
Regarding your concern with the Creator, the build phases like mapping, placing and routing do have improvements with versions, nevertheless as you've mentioned, incrementally placing components and building helps the software in generating better verbose messages if there are errors. Please do look out for the Release Notes documentation which is bundled with each Creator release to get a list of all enhancements applied to the new release.
I also encourage you to share your specific feedback on areas where you'd like to see improvements in the Creator build process through our tech support channel - http://www.cypress.com/mycases