"Without recombination, all alleles for those genes linked together on the same chromosome would be inherited together. Meiotic recombination allows a more independent selection between the two alleles that occupy the positions of single genes,
as recombination shuffles the allele content between homologous chromosomes."
http://en.wikipedia.org/wiki/Crossing_over,_genetic
...and one more. Keep in mind that cannabis is more tolerant of inbreeding than cattle, but the same things apply. If the line gets too inbred, cross it back to one of the P1, or one of their siblings, or to one of the F1, but not back to the same individual.
" If the frequency of a deleterious allele in a population is only 0.01 (i.e., one out of every 100 alleles), and all the animals mate randomly, then only one out of every 10,000 animals would be expected to inherit the trait from both parents, and thus express the defect. But imagine that this trait is present in a particular bull, and that bull is very popular (because he also has some desirable trait, such as very long horns in the case of Texas Longhorns). As this bull is bred to many females, half of the resultant offspring would now carry any given deleterious recessive trait possessed by that bull. If these individuals are mated to one another, then 25% of their offspring would be homozygous for the deleterious allele, and another 50% would carry the allele in a heterozygous state. In this extreme form of inbreeding, in just two generations the defect went from being expressed in one out of every 10,000 animals to one out of every four animals, with three-quarters of the animals now carrying the defect. The decrease in fitness that results from such inbreeding is known as inbreeding depression."
http://doublehelixranch.com/defects.html