the 9853 includes alpine's 'bass engine pro' tuning features. these are fairly complex and very comprehensive, and require expert level tuning ability to set right. you want to learn about what they do first, then go about experimenting with using them.
*xovers: you can use the inbuilt xovers in the 9853 instead of the ones in the amps; this is more convenient and accurate, so disable the amp ones; start with a HP setting of ~80Hz with a steepish slope, say 18dB/oct, for the splits; then try a LP filter a bit lower, say ~70Hz, and steeper slope, say 24dB/oct
*parametric EQ: you can try and tune by ear, say using an SQ disc, one that you know is very well recorded and displays all spectrums of music, including quality subbass, midbass, vocals and accurate treble; better still, get access to an RTA (realtime analyser) to measure the system's frequency response; this will help you set the xover and EQ for a nice flat frequency response, so all frequencies are nice and even
*time correction: measure the distance from your ears to the speakers and sub; this will help you set the TC; aim to create 'upfront bass' where it sounds like the sub is right infront of you (ie: delay the front speakers relative to the sub, say by 5~6ms); you can tailor L-R setting to centre the vocals right in the centre of the dash; this typically requires delaying the R speakers more than the L
read, learn, experiment. enter SQ comps for feedback. attend CAA Meets and have SQ nutters audition your system for advice. find a retailer with an RTA.
it's otherwise impossible to advise over forums on how to tune things. we have to hear the stereo. regardless, don't expect to tune it perfectly first time. i've been fine tuning my system for 2 years or so, tweaking here and there, based upon feedback received in competitions.
note too, if the system sounds poor, then your installation probably isn't up to scratch. tuning properly will help, but it won't make a poor system sound fantastic.
good luck.